Auto-upload batch data to clear storage

.gitattributes

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data/__notebook__.ipynb

@@ -36154,6 +36154,1927 @@
      },
      "metadata": {},
      "output_type": "display_data"
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "-> Upload thành công!\n",
+      "-> Đang xóa dữ liệu local để giải phóng bộ nhớ...\n"
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "-> Đã làm trống thư mục. Dung lượng hiện tại: 0.00 GB\n",
+      "--------------------------------------------------\n",
+      "[4387/10000] (15.26GB) Downloading: TCGA-BRCA.1123e3e5-8125-432d-9246-195e8114be97.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4388/10000] (0.00GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_C11_777986.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4389/10000] (0.00GB) Downloading: TCGA-E9-A1NA-01A-11D-A897-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.22 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4390/10000] (0.00GB) Downloading: TCGA-E9-A1NA-11A-03-TSC.2a243596-1e64-4547-9bed-a7fd1974ad6f.svs (60.34 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4391/10000] (0.06GB) Downloading: TCGA-BRCA.06885aa5-33ae-4eab-ae31-f5f9c9b16480.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4392/10000] (0.06GB) Downloading: 176f6d73-7243-49a2-a482-9e83f58641b3_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4393/10000] (0.07GB) Downloading: 9b48ea80-55b8-40d4-a3cd-37b43aee661c_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4394/10000] (0.08GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-E2-A1IO.xml (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4395/10000] (0.08GB) Downloading: TCGA-E9-A1NA.595BB256-2F3D-493A-AA90-022BE0CC995F.PDF (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4396/10000] (0.08GB) Downloading: 41f18e0d-b33e-4438-8bdf-c39bc2d7d463_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4397/10000] (0.09GB) Downloading: 8bf80ca0-4d11-43b4-9882-d7ef0d156924.mirbase21.isoforms.quantification.txt (0.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4398/10000] (0.09GB) Downloading: TCGA-E2-A1IO-11A-02-TSB.d9bed477-83dd-4b46-b605-a75752d606e8.svs (49.37 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4399/10000] (0.13GB) Downloading: TCGA-BRCA.06885aa5-33ae-4eab-ae31-f5f9c9b16480.ascat3.allelic_specific.seg.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4400/10000] (0.14GB) Downloading: nationwidechildrens.org_clinical.TCGA-E9-A1NA.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4401/10000] (0.14GB) Downloading: TCGA-E9-A1NA-01Z-00-DX1.2A2FE8BB-621E-43A2-8449-F8FE730C0487.svs (306.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4402/10000] (0.43GB) Downloading: 176f6d73-7243-49a2-a482-9e83f58641b3.methylation_array.sesame.level3betas.txt (12.57 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4403/10000] (0.45GB) Downloading: 8a178b3e-179e-4c8b-8c7e-33c91a7d6335.mirbase21.isoforms.quantification.txt (0.44 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4404/10000] (0.45GB) Downloading: TCGA-E9-A1NA-11A-02-TSB.665accd6-2a2a-40a7-8bb8-33175015e4fc.svs (41.81 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4405/10000] (0.49GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_H10_667054.nocnv_grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4406/10000] (0.49GB) Downloading: fd9d78f6-698f-462b-9295-6525be77de9b.wxs.aliquot_ensemble_masked.maf.gz (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4407/10000] (0.49GB) Downloading: TCGA-E2-A1IO-01A-11D-A896-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4408/10000] (0.49GB) Downloading: nationwidechildrens.org_ssf.TCGA-E9-A1NA.xml (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4409/10000] (0.49GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_H10_667054.grch38.seg.v2.txt (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4410/10000] (0.49GB) Downloading: TCGA-BRCA.2e5d28ee-b288-466f-9d14-0ed674e0c6b0.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4411/10000] (0.49GB) Downloading: 176f6d73-7243-49a2-a482-9e83f58641b3_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4412/10000] (0.50GB) Downloading: bf04b853-9f33-4c8d-94b3-4a5533426a38.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4413/10000] (0.50GB) Downloading: 64ed3b7c-8828-4226-a9a9-46d462088716.methylation_array.sesame.level3betas.txt (12.56 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4414/10000] (0.51GB) Downloading: 2af81517-e7ce-46b2-ae6d-c9b3f6ef809a.mirbase21.isoforms.quantification.txt (0.23 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4415/10000] (0.51GB) Downloading: 2af81517-e7ce-46b2-ae6d-c9b3f6ef809a.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4416/10000] (0.51GB) Downloading: TCGA-D8-A1XL-01Z-00-DX1.FDF07020-8F40-4C00-9023-E5F40E0D8A7C.svs (680.26 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4417/10000] (1.17GB) Downloading: TCGA-BRCA.1dd196c1-6198-4edf-b8a1-66fed90a68b3.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4418/10000] (1.18GB) Downloading: TCGA-BRCA.c50f9ab3-c448-4289-b6b1-36ddcbd9efb9.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4419/10000] (1.18GB) Downloading: TCGA-D8-A1XL-01Z-00-DX2.FDE2C80D-5DC4-4743-A180-C5AFC5BB0BE2.svs (1522.12 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4420/10000] (2.67GB) Downloading: BULGY_p_TCGA_bM1_124_SNP_N_GenomeWideSNP_6_C06_780898.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4421/10000] (2.67GB) Downloading: nationwidechildrens.org_ssf.TCGA-D8-A1XL.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4422/10000] (2.67GB) Downloading: 34ef4d83-af25-4811-9a39-a731df308270.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4423/10000] (2.67GB) Downloading: efb9d753-0936-417d-ad54-f88d9f7ab01e.wxs.aliquot_ensemble_masked.maf.gz (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4424/10000] (2.67GB) Downloading: TCGA-BRCA.1dd196c1-6198-4edf-b8a1-66fed90a68b3.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4425/10000] (2.67GB) Downloading: bf04b853-9f33-4c8d-94b3-4a5533426a38.mirbase21.isoforms.quantification.txt (0.32 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4426/10000] (2.67GB) Downloading: nationwidechildrens.org_ssf.TCGA-A1-A0SN.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4427/10000] (2.67GB) Downloading: TCGA-BRCA.1dd196c1-6198-4edf-b8a1-66fed90a68b3.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4428/10000] (2.67GB) Downloading: 4087cbb6-eeb6-43d7-80ae-106585472f15.methylation_array.sesame.level3betas.txt (12.58 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4429/10000] (2.68GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_C09_777996.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4430/10000] (2.68GB) Downloading: TCGA-A1-A0SN-01A-01-TS1.ae0aafc3-dbcf-4e93-b817-974263ade19a.svs (246.68 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4431/10000] (2.92GB) Downloading: nationwidechildrens.org_clinical.TCGA-D8-A1JP.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4432/10000] (2.92GB) Downloading: TCGA-A2-A259-01A-11D-A89A-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4433/10000] (2.92GB) Downloading: BULGY_p_TCGA_bM1_124_SNP_N_GenomeWideSNP_6_C06_780898.grch38.seg.v2.txt (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4434/10000] (2.92GB) Downloading: TCGA-BRCA.0a50d096-f517-485c-9b61-5ab097ce7d8d.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4435/10000] (2.92GB) Downloading: TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_A10_1513252.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4436/10000] (2.92GB) Downloading: TCGA-A1-A0SB.BEC7EEA9-6DEA-4402-A3A1-07EF33D58174.PDF (0.33 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4437/10000] (2.92GB) Downloading: TCGA-BRCA.a12ef456-3010-4ec9-a428-0259be208606.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4438/10000] (2.93GB) Downloading: TCGA-BRCA.d4c2fab5-8fbd-4ab5-b18c-37f9b4b576a8.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4439/10000] (2.93GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-B6-A0IM.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4440/10000] (2.93GB) Downloading: ffe6f874-63fd-4bdc-b285-d724859934cb.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4441/10000] (2.93GB) Downloading: TCGA-AQ-A7U7-01A-02-TSB.CC7A55C4-13CA-43B5-A623-EABD929C9313.svs (215.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4442/10000] (3.14GB) Downloading: TCGA-A8-A08B-01A-01-MS1.6513191e-0189-4a23-9a56-5ac94a553b43.svs (326.98 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4443/10000] (3.46GB) Downloading: 4fbe4ee1-7efd-4ba4-8116-5ab3b4666b48.mirbase21.isoforms.quantification.txt (0.41 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4444/10000] (3.46GB) Downloading: 4ebb1ec1-1b17-49f8-b5ca-79893b22049b.wgs.ASCAT.gene_level.copy_number_variation.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4445/10000] (3.46GB) Downloading: f6114c69-71a1-47d5-9b28-b0227b1872f7_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.38 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4446/10000] (3.46GB) Downloading: 5904cf23-631f-4a63-a7f3-b4db6668731f.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4447/10000] (3.46GB) Downloading: 33fbc3aa-c3f3-47b3-99dc-fd0f70422151_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4448/10000] (3.47GB) Downloading: 7830107d-bc45-4391-b95c-787a246cf059.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4449/10000] (3.47GB) Downloading: GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_D07_778102.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4450/10000] (3.47GB) Downloading: TCGA-AQ-A7U7-01A-22D-A89E-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4451/10000] (3.47GB) Downloading: CUSKS_p_TCGAb47_SNP_1N_GenomeWideSNP_6_C10_628234.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4452/10000] (3.47GB) Downloading: 7092b0cc-6342-4043-9a89-7de7c395db83_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4453/10000] (3.48GB) Downloading: TCGA-BRCA.95a462db-8ab9-4a3e-8463-0927b77a9a93.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4454/10000] (3.48GB) Downloading: HELVE_p_TCGA_b139_154_155_SNP_N_GenomeWideSNP_6_E03_808682.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4455/10000] (3.48GB) Downloading: TCGA-BRCA.709f0022-50be-49df-839c-9e716e3e0869.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4456/10000] (3.48GB) Downloading: TCGA-BRCA.8b2ac658-78b4-40dc-8151-fb5296ecc828.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4457/10000] (3.49GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AC-A2FG.xml (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4458/10000] (3.49GB) Downloading: nationwidechildrens.org_omf.TCGA-AQ-A7U7.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4459/10000] (3.49GB) Downloading: 8224439b-5900-449f-8a58-c08213264999_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4460/10000] (3.50GB) Downloading: 05ddce6e-57b0-4b78-9955-7c1b4c564498.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4461/10000] (3.50GB) Downloading: dbbd21e0-3f6a-43cd-868e-5d3ed3e7a024.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4462/10000] (3.50GB) Downloading: 36ab6700-d588-4ba3-8adc-e0971d797f35.methylation_array.sesame.level3betas.txt (12.58 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4463/10000] (3.51GB) Downloading: TCGA-BRCA.709f0022-50be-49df-839c-9e716e3e0869.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4464/10000] (3.51GB) Downloading: TCGA-BRCA.ba8ff683-777a-4d41-9261-014c89e17791.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4465/10000] (3.52GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A8-A08B.xml (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4466/10000] (3.52GB) Downloading: 7092b0cc-6342-4043-9a89-7de7c395db83_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4467/10000] (3.52GB) Downloading: TCGA-AN-A0FD-01A-01-BS1.8993b012-d168-422d-ae26-a3947764acd9.svs (467.17 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4468/10000] (3.98GB) Downloading: TCGA-A8-A08B-01Z-00-DX1.416316FD-E8BF-402C-939A-08920F08A181.svs (575.65 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4469/10000] (4.54GB) Downloading: TCGA-BRCA.ba8ff683-777a-4d41-9261-014c89e17791.ascat3.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4470/10000] (4.54GB) Downloading: TCGA-A2-A0CR-01A-21D-A890-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4471/10000] (4.54GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_G07_666954.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4472/10000] (4.54GB) Downloading: TCGA-3C-AALJ-01Z-00-DX1.777C0957-255A-42F0-9EEB-A3606BCF0C96.svs (1786.13 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4473/10000] (6.29GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AN-A0FD.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4474/10000] (6.29GB) Downloading: TCGA-A2-A0CR-01A-01-TSA.192598C2-7093-4171-B779-6EDE8AD7998B.svs (265.10 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4475/10000] (6.54GB) Downloading: nationwidechildrens.org_ssf.TCGA-AN-A0FD.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4476/10000] (6.54GB) Downloading: 24af4b98-8e5f-4bbe-9b1d-63e6faa9bf0e_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4477/10000] (6.54GB) Downloading: 54c696de-d778-4e79-9cc3-3297eacb1299.methylation_array.sesame.level3betas.txt (12.42 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4478/10000] (6.56GB) Downloading: b9ec5332-e422-453d-b3e0-5254bb88934d.wxs.aliquot_ensemble_masked.maf.gz (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4479/10000] (6.56GB) Downloading: TCGA-3C-AALJ.265E5A9A-64FD-4B86-89BC-5E89F253C118.PDF (0.21 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4480/10000] (6.56GB) Downloading: TCGA-BRCA.4d7aae97-ae34-43e0-97a4-bfb15e3543b4.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4481/10000] (6.56GB) Downloading: 8a6ebcbf-1d3f-4b3c-ae8b-33776c1c58df_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4482/10000] (6.57GB) Downloading: TCGA-A2-A0CR-01Z-00-DX1.F7D36CA5-A4C6-443A-AEED-5B23CD924FA3.svs (1477.38 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4483/10000] (8.01GB) Downloading: nationwidechildrens.org_ssf.TCGA-A2-A0CR.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4484/10000] (8.01GB) Downloading: 87172a27-b8ef-45c1-bf26-8682f63e16fa.wxs.aliquot_ensemble_masked.maf.gz (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4485/10000] (8.01GB) Downloading: TCGA-A2-A0CR-01A-22-A24A-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4486/10000] (8.01GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A2-A0CR.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4487/10000] (8.01GB) Downloading: 7a8c1621-8a36-4b85-affe-966d83cbce64.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4488/10000] (8.01GB) Downloading: KEBAB_p_TCGASNP_226_227_N_GenomeWideSNP_6_H08_1151500.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4489/10000] (8.01GB) Downloading: e0d63c88-2776-4608-bfd5-358a02a681a0.wxs.aliquot_ensemble_masked.maf.gz (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4490/10000] (8.01GB) Downloading: 8668654e-c441-4279-80e3-345787c28922.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4491/10000] (8.01GB) Downloading: TCGA-BRCA.e98fb773-897b-48bb-9b3d-387079e5e5db.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4492/10000] (8.02GB) Downloading: 20171ef3-0986-476f-96f8-9d6051835771_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4493/10000] (8.03GB) Downloading: be818105-003e-449f-b784-eda5fab3d659.methylation_array.sesame.level3betas.txt (12.53 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4494/10000] (8.04GB) Downloading: TCGA-BRCA.09a78982-3fe5-4dd0-be97-03b03a6bf683.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4495/10000] (8.04GB) Downloading: TCGA-AO-A124-01A-01-TSA.ace4fa54-5ef0-4cb9-85be-8c7680889278.svs (232.18 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4496/10000] (8.26GB) Downloading: TCGA-BRCA.071b569b-3b44-4a6b-ac2c-bbda7d13c501.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4497/10000] (8.26GB) Downloading: TCGA-BRCA.071b569b-3b44-4a6b-ac2c-bbda7d13c501.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4498/10000] (8.27GB) Downloading: TCGA-BRCA.cea1bfb5-fe63-4515-8f2b-66696afa23b2.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4499/10000] (8.27GB) Downloading: ff5cd2c4-e5de-4eb8-b679-e65449ec323a.mirbase21.isoforms.quantification.txt (0.33 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4500/10000] (8.27GB) Downloading: 215e19b1-2444-4e32-8bc3-182d623c7352.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4501/10000] (8.27GB) Downloading: TCGA-AC-A4ZE-01A-21-A43F-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4502/10000] (8.27GB) Downloading: TCGA-AO-A124-01A-01-BSA.0770840e-d781-45f2-bbc8-034f0e4138a5.svs (397.21 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4503/10000] (8.66GB) Downloading: ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_F11_734726.nocnv_grch38.seg.v2.txt (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4504/10000] (8.66GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AO-A124.xml (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4505/10000] (8.66GB) Downloading: nationwidechildrens.org_ssf.TCGA-BH-A0B0.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4506/10000] (8.66GB) Downloading: ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_E10_734642.nocnv_grch38.seg.v2.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4507/10000] (8.66GB) Downloading: TCGA-AR-A24M-01Z-00-DX1.D81F1BDF-00DD-42A3-AFFE-55655A877213.svs (1458.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4508/10000] (10.08GB) Downloading: fdadb011-0da3-458f-8b4e-d09e4c847a5b.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4509/10000] (10.09GB) Downloading: URAEI_p_TCGASNP_b85_N_GenomeWideSNP_6_E11_735030.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4510/10000] (10.09GB) Downloading: b7f0bf0d-f935-41e3-8d19-f360ac20d530.methylation_array.sesame.level3betas.txt (0.73 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4511/10000] (10.09GB) Downloading: 5b84ccee-4b8e-4710-97d9-28e269a4e60b.wxs.aliquot_ensemble_masked.maf.gz (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4512/10000] (10.09GB) Downloading: 6e839eaf-1dbb-43f5-8846-c980e05540c7_wgs_gdc_realn.cr.igv.reheader.seg.txt (0.18 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4513/10000] (10.09GB) Downloading: TCGA-BRCA.4570b87f-8116-48bf-86d3-b993536c88db.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4514/10000] (10.09GB) Downloading: TCGA-BH-A0B0.EB09D890-879C-4874-AE3F-47E41C2C66FE.PDF (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4515/10000] (10.09GB) Downloading: 2a477d9c-7ebb-492d-8f1d-be599b6e1300.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4516/10000] (10.09GB) Downloading: TCGA-A2-A25B-01A-21-A17I-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4517/10000] (10.09GB) Downloading: BITES_p_TCGAb61_SNP_S_GenomeWideSNP_6_D07_697058.grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4518/10000] (10.09GB) Downloading: TCGA-BH-A0BM-01Z-00-DX1.8BD324F2-60F5-4F59-AF2D-533A5FB230BF.svs (584.30 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4519/10000] (10.66GB) Downloading: b7f0bf0d-f935-41e3-8d19-f360ac20d530_noid_Grn.idat (0.69 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4520/10000] (10.66GB) Downloading: b22d3e38-c370-4719-bea6-3dcbd9590935.rna_seq.augmented_star_gene_counts.tsv (4.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4521/10000] (10.66GB) Downloading: 1dc5240a-ec06-451e-937e-010e1cd46067_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4522/10000] (10.67GB) Downloading: BITES_p_TCGAb61_SNP_S_GenomeWideSNP_6_H06_697098.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4523/10000] (10.67GB) Downloading: 1dc5240a-ec06-451e-937e-010e1cd46067_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4524/10000] (10.68GB) Downloading: TCGA-BRCA.4570b87f-8116-48bf-86d3-b993536c88db.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4525/10000] (10.68GB) Downloading: TCGA-BRCA.716578b3-e202-483b-b15c-784f5a0c60f3.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4526/10000] (10.68GB) Downloading: 06ae7b4d-2906-4a38-a4ef-1cc937716dcb.rna_seq.augmented_star_gene_counts.tsv (4.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4527/10000] (10.69GB) Downloading: TCGA-BH-A0BM-01A-21-A13B-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4528/10000] (10.69GB) Downloading: BITES_p_TCGAb61_SNP_S_GenomeWideSNP_6_E03_697050.nocnv_grch38.seg.v2.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4529/10000] (10.69GB) Downloading: TCGA-BRCA.18466ec8-1c12-4047-b792-9693e00fe15b.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4530/10000] (10.69GB) Downloading: TCGA-AO-A0JD.E8A43FF3-3D98-45EE-9567-6EED4DA38274.PDF (0.58 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4531/10000] (10.69GB) Downloading: TCGA-BH-A0BM.7F75F15A-2476-4FFD-97B3-313F06568E21.PDF (0.11 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4532/10000] (10.69GB) Downloading: TCGA-BRCA.4570b87f-8116-48bf-86d3-b993536c88db.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4533/10000] (10.69GB) Downloading: TCGA-BRCA.18466ec8-1c12-4047-b792-9693e00fe15b.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4534/10000] (10.70GB) Downloading: TCGA-BRCA.e866c189-b2f5-4948-afcf-adfc6ff323eb.ascat2.allelic_specific.seg.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4535/10000] (10.70GB) Downloading: eeee00e8-27d0-4ead-9c99-d8d9a50d2dbc_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4536/10000] (10.70GB) Downloading: eeee00e8-27d0-4ead-9c99-d8d9a50d2dbc_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4537/10000] (10.71GB) Downloading: HAULS_p_TCGAb47_SNP_2N_GenomeWideSNP_6_F12_628570.nocnv_grch38.seg.v2.txt (0.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4538/10000] (10.71GB) Downloading: TCGA-AO-A0JD-01A-01-TSA.d855990d-c9ee-42d4-8d7a-8345e65da160.svs (621.58 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4539/10000] (11.32GB) Downloading: 2bc7c615-bcbe-4507-a7d7-1e6faa91a4cf.wxs.aliquot_ensemble_masked.maf.gz (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4540/10000] (11.32GB) Downloading: HAULS_p_TCGAb47_SNP_2N_GenomeWideSNP_6_F12_628570.grch38.seg.v2.txt (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4541/10000] (11.32GB) Downloading: TCGA-BRCA.aabd1bd8-a5fc-44fd-8a1c-300fbab3032f.ascat2.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4542/10000] (11.32GB) Downloading: f3a778b0-baa1-41bb-ae1a-f6f464dc762b.methylation_array.sesame.level3betas.txt (0.73 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4543/10000] (11.32GB) Downloading: TCGA-BRCA.ce2e1bd2-6d7a-45d2-92ca-e2550974cfc8.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4544/10000] (11.32GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AO-A03O.xml (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4545/10000] (11.32GB) Downloading: HELVE_p_TCGA_b139_154_155_SNP_N_GenomeWideSNP_6_H02_808638.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4546/10000] (11.32GB) Downloading: c9b9ed6a-ff3e-4f10-bd30-2b746dc43404.mirbase21.isoforms.quantification.txt (0.40 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4547/10000] (11.32GB) Downloading: 222342ac-43f6-4be5-8cde-4aedde052acd.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4548/10000] (11.32GB) Downloading: TCGA-BRCA.e866c189-b2f5-4948-afcf-adfc6ff323eb.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4549/10000] (11.33GB) Downloading: TCGA-BRCA.e866c189-b2f5-4948-afcf-adfc6ff323eb.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4550/10000] (11.33GB) Downloading: TCGA-BRCA.e866c189-b2f5-4948-afcf-adfc6ff323eb.ascat3.allelic_specific.seg.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4551/10000] (11.33GB) Downloading: TCGA-AR-A0TW-01A-01-BSA.70e22d8c-b052-4fcc-9150-8d46663ff942.svs (341.84 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4552/10000] (11.66GB) Downloading: TCGA-BRCA.aabd1bd8-a5fc-44fd-8a1c-300fbab3032f.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4553/10000] (11.67GB) Downloading: TCGA-BRCA.aabd1bd8-a5fc-44fd-8a1c-300fbab3032f.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4554/10000] (11.67GB) Downloading: 7d10fcde-a4b3-4457-87b7-9c09ad48e8fd_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4555/10000] (11.68GB) Downloading: nationwidechildrens.org_clinical.TCGA-AO-A0JD.xml (0.10 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4556/10000] (11.68GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-AO-A0JD.xml (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4557/10000] (11.68GB) Downloading: TCGA-AC-A2FF.E6897E14-465A-486A-A6AD-FCFED21629F2.PDF (0.25 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4558/10000] (11.68GB) Downloading: TCGA-BRCA.0dd5d01d-8c6d-48ff-9cc0-fdc8d853b87c.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4559/10000] (11.68GB) Downloading: 08429604-2dc7-4827-8ba5-80818aa45a51.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4560/10000] (11.68GB) Downloading: BEAUX_p_TCGA_b109_SNP_2N_GenomeWideSNP_6_F09_772122.nocnv_grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4561/10000] (11.68GB) Downloading: SHAWM_p_TCGAb72_SNP_N_GenomeWideSNP_6_A11_698152.grch38.seg.v2.txt (0.08 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4562/10000] (11.68GB) Downloading: 27d35f89-f129-4683-a54d-4540d29bdafe.mirbase21.isoforms.quantification.txt (0.19 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4563/10000] (11.68GB) Downloading: TCGA-AN-A0FZ.8CC70CDC-01EC-4E2B-84C1-F1C946602CCE.PDF (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4564/10000] (11.68GB) Downloading: TCGA-BRCA.18466ec8-1c12-4047-b792-9693e00fe15b.ascat2.allelic_specific.seg.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4565/10000] (11.68GB) Downloading: BEAUX_p_TCGA_b109_SNP_2N_GenomeWideSNP_6_C08_772120.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4566/10000] (11.68GB) Downloading: TCGA-BRCA.0dd5d01d-8c6d-48ff-9cc0-fdc8d853b87c.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4567/10000] (11.69GB) Downloading: 7d10fcde-a4b3-4457-87b7-9c09ad48e8fd_noid_Grn.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4568/10000] (11.70GB) Downloading: TCGA-AO-A128-01Z-00-DX1.4E6BFFBC-87AD-4ED4-959D-FEB5545400BE.svs (533.21 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4569/10000] (12.22GB) Downloading: 7ee4348d-9975-42ba-b258-2334e089395c.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4570/10000] (12.22GB) Downloading: TCGA-D8-A1JG.E1907A10-207B-41F1-8B8B-24D5B551BD05.PDF (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4571/10000] (12.22GB) Downloading: 368cf2d6-2394-4f9b-abd0-989e43d8dc78_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4572/10000] (12.23GB) Downloading: 6e8f0a02-51cf-42ac-8042-8b143d7ab7e1.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4573/10000] (12.23GB) Downloading: TCGA-BRCA.522b6d2e-b8b1-46d0-b0cb-3823d574e549.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4574/10000] (12.23GB) Downloading: SHOUT_p_TCGAb_319_20_21_22_NSP_GenomeWideSNP_6_G11_1365122.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4575/10000] (12.23GB) Downloading: TCGA-AN-A0FZ-01Z-00-DX1.9555AF11-3A0D-4FE3-AE91-09DA77B175CA.svs (346.73 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4576/10000] (12.57GB) Downloading: TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4577/10000] (12.57GB) Downloading: nationwidechildrens.org_clinical.TCGA-AN-A0FZ.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4578/10000] (12.57GB) Downloading: nationwidechildrens.org_clinical.TCGA-AO-A128.xml (0.09 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4579/10000] (12.57GB) Downloading: TCGA-AN-A0FZ-01A-21-A13C-20_RPPA_data.tsv (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4580/10000] (12.57GB) Downloading: TCGA-E9-A6HE-01A-11D-A89E-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.04 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4581/10000] (12.57GB) Downloading: TCGA-AO-A128-01A-01-TSA.6bd59663-0c98-4fd6-8b4a-87b47541e08b.svs (340.19 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4582/10000] (12.91GB) Downloading: TCGA-BRCA.04ca65ff-5024-4c58-9c7e-5f03691f3c6d.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4583/10000] (12.91GB) Downloading: TCGA-AO-A128-01A-11D-A894-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.07 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4584/10000] (12.91GB) Downloading: c0652b4c-cca7-4dc9-af6c-b18421c9b9ca.methylation_array.sesame.level3betas.txt (11.93 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4585/10000] (12.92GB) Downloading: f9a3b84f-3b73-4f5f-8b68-1aa1fa553ee7.mirbase21.isoforms.quantification.txt (0.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4586/10000] (12.92GB) Downloading: TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4587/10000] (12.92GB) Downloading: ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G08_734684.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4588/10000] (12.92GB) Downloading: c0652b4c-cca7-4dc9-af6c-b18421c9b9ca_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4589/10000] (12.93GB) Downloading: 66418885-39f5-458c-a032-640eaf030b79.methylation_array.sesame.level3betas.txt (12.31 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4590/10000] (12.94GB) Downloading: 66418885-39f5-458c-a032-640eaf030b79_noid_Red.idat (7.72 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4591/10000] (12.95GB) Downloading: ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G09_734640.grch38.seg.v2.txt (0.02 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4592/10000] (12.95GB) Downloading: TCGA-BRCA.2c01b1ef-d826-4183-b79d-903d4fe5ef5e.ascat3.gene_level_copy_number.v36.tsv (3.29 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4593/10000] (12.95GB) Downloading: TCGA-BRCA.e704bf4e-f9a2-4ae5-a6ae-2cf62564c0ec.ascat2.allelic_specific.seg.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4594/10000] (12.95GB) Downloading: BONZE_p_TCGAb56_SNP_1N_GenomeWideSNP_6_A04_666910.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4595/10000] (12.95GB) Downloading: BURSA_p_TCGA_303_304_305_N_GenomeWideSNP_6_E07_1344784.grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4596/10000] (12.95GB) Downloading: TCGA-BRCA.04ca65ff-5024-4c58-9c7e-5f03691f3c6d.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4597/10000] (12.95GB) Downloading: nationwidechildrens.org_ssf.TCGA-B6-A0RM.xml (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4598/10000] (12.95GB) Downloading: TCGA-OL-A66K.8A19AA55-9B1F-4325-B730-068F928F1C13.PDF (0.17 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4599/10000] (12.95GB) Downloading: SHAWM_p_TCGAb72_SNP_N_GenomeWideSNP_6_H02_698142.nocnv_grch38.seg.v2.txt (0.01 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4600/10000] (12.95GB) Downloading: 5861fadd-0879-4697-a1cd-43e77b205c26.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4601/10000] (12.95GB) Downloading: TCGA-BRCA.4a733db9-a92f-457b-b0ef-25a0722e9d44.ascat3.allelic_specific.seg.txt (0.00 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4602/10000] (12.95GB) Downloading: SHAWM_p_TCGAb72_SNP_N_GenomeWideSNP_6_H02_698142.grch38.seg.v2.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4603/10000] (12.95GB) Downloading: TCGA-B6-A0RM-01A-01-BSA.8b6ffe6e-5db9-49dc-b778-878a7d62c184.svs (119.82 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4604/10000] (13.07GB) Downloading: TCGA-B6-A0RM-01A-11D-A892-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.03 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4605/10000] (13.07GB) Downloading: 56f92378-3707-489e-b4bc-6f7485122484.rna_seq.augmented_star_gene_counts.tsv (4.06 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4606/10000] (13.08GB) Downloading: nationwidechildrens.org_biospecimen.TCGA-A7-A6VV.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4607/10000] (13.08GB) Downloading: TCGA-A7-A6VV-01Z-00-DX2.4C2BF8C1-CC84-4A6E-BC0F-430BC8BE6B26.svs (582.85 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4608/10000] (13.64GB) Downloading: TCGA-GM-A2DF-01Z-00-DX1.CD0BE6D7-2DB3-4193-84CC-F9BE7BF18CC2.svs (1288.89 MB)... "
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+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4609/10000] (14.90GB) Downloading: TCGA-A7-A6VV-01A-22D-A89E-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt (0.17 MB)... "
+     ]
+    },
+    {
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+     "text": [
+      "OK\n",
+      "[4610/10000] (14.90GB) Downloading: fff3f42f-5e42-4653-b91b-1676f914e9fa.rna_seq.augmented_star_gene_counts.tsv (4.05 MB)... "
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+    {
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+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4611/10000] (14.91GB) Downloading: TCGA-BRCA.7406aaff-b28a-4b4c-8fa3-b4e208b8cf85.absolute_liftover.gene_level_copy_number.v36.tsv (3.28 MB)... "
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+     "text": [
+      "OK\n",
+      "[4612/10000] (14.91GB) Downloading: 8ad13ac2-cb63-4a69-8229-e5bef8411afe_noid_Red.idat (7.72 MB)... "
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+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4613/10000] (14.92GB) Downloading: 57e21cc8-dedc-4f9a-86ee-15e870dbb817.mirbase21.mirnas.quantification.txt (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4614/10000] (14.92GB) Downloading: TCGA-BRCA.1fdda772-80cf-45f4-ae85-79ebf4000fb7.absolute_liftover.gene_level_copy_number.v36.tsv (3.27 MB)... "
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+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4615/10000] (14.92GB) Downloading: 8ad13ac2-cb63-4a69-8229-e5bef8411afe_noid_Grn.idat (7.72 MB)... "
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+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4616/10000] (14.93GB) Downloading: 57e21cc8-dedc-4f9a-86ee-15e870dbb817.mirbase21.isoforms.quantification.txt (0.34 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4617/10000] (14.93GB) Downloading: nationwidechildrens.org_clinical.TCGA-B6-A0RM.xml (0.05 MB)... "
+     ]
+    },
+    {
+     "name": "stdout",
+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4618/10000] (14.93GB) Downloading: 34b6d871-e421-4c0b-965e-97113d998c44.methylation_array.sesame.level3betas.txt (12.58 MB)... "
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+     "output_type": "stream",
+     "text": [
+      "OK\n",
+      "[4619/10000] (14.94GB) Downloading: TCGA-A7-A6VV-01Z-00-DX1.07AE0E16-A883-4C86-BC74-4E13081175F2.svs (338.04 MB)... "
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+      "It seems you are trying to upload a large folder at once. This might take some time and then fail if the folder is too large. For such cases, it is recommended to upload in smaller batches or to use `HfApi().upload_large_folder(...)`/`hf upload-large-folder` instead. For more details, check out https://huggingface.co/docs/huggingface_hub/main/en/guides/upload#upload-a-large-folder.\n"
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+     "text": [
+      "OK\n",
+      "\n",
+      "!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!\n",
+      "CẢNH BÁO: Dung lượng đã đạt giới hạn (15.27 GB).\n",
+      "Đang tiến hành upload lên Hugging Face và giải phóng bộ nhớ...\n",
+      "!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!!\n",
+      "\n"
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data/gdc_data_organized/016caf42-4e19-4444-ab5d-6cf1e76c4afa/ETUIS_p_TCGASNP_b80_83_N_GenomeWideSNP_6_G09_734640.grch38.seg.v2.txt

@@ -0,0 +1,341 @@
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data/gdc_data_organized/016caf42-4e19-4444-ab5d-6cf1e76c4afa/TCGA-AO-A128-01A-11D-A894-36.WholeGenome.RP-1657.cr.igv.reheader.seg.txt

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data/gdc_data_organized/016caf42-4e19-4444-ab5d-6cf1e76c4afa/nationwidechildrens.org_clinical.TCGA-AO-A128.xml

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+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">B5268F93-15EF-43A1-8BE2-0B2028D0A7FD</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">80.84.0</admin:batch_number>
+        <admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+        <admin:patient_withdrawal>
+            <admin:withdrawn>false</admin:withdrawn>
+        </admin:patient_withdrawal>
+        <admin:program xsi:nil="true" xsd_ver="2.7"/>
+        <admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
+    </admin:admin>
+    <brca:patient>
+        <admin:additional_studies/>
+        <clin_shared:tumor_tissue_site preferred_name="submitted_tumor_site" display_order="9999" cde="3427536" cde_ver="2.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467200">Breast</clin_shared:tumor_tissue_site>
+        <clin_shared:tumor_tissue_site_other preferred_name="site_of_primary_tumor_other" display_order="999" cde="2584114" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467201" xsi:nil="true"/>
+        <shared:other_dx preferred_name="history_other_malignancy" display_order="14" cde="3382736" cde_ver="2.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467189">No</shared:other_dx>
+        <shared:gender preferred_name="gender" display_order="10" cde="2200604" cde_ver="3.000" xsd_ver="1.8" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467180">FEMALE</shared:gender>
+        <clin_shared:vital_status preferred_name="vital_status" display_order="17" cde="5" cde_ver="5.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467185">Alive</clin_shared:vital_status>
+        <clin_shared:days_to_birth precision="day" xsd_ver="1.12" tier="1" cde="3008233" owner="TSS" procurement_status="Completed" preferred_name="birth_days_to" display_order="9" cde_ver="1.000">-22340</clin_shared:days_to_birth>
+        <clin_shared:days_to_last_known_alive precision="day" xsd_ver="2.1" tier="2" cde="" owner="TSS" procurement_status="Not Available" preferred_name="" display_order="9999" cde_ver=""/>
+        <clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Not Applicable" preferred_name="death_days_to" display_order="25" cde_ver="1.000"/>
+        <clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Completed" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000">2877</clin_shared:days_to_last_followup>
+        <clin_shared:race_list>
+            <clin_shared:race preferred_name="race" display_order="12" cde="2192199" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467187">WHITE</clin_shared:race>
+        </clin_shared:race_list>
+        <shared:bcr_patient_barcode preferred_name="" display_order="9999" cde="2003301" cde_ver="" xsd_ver="1.8" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128</shared:bcr_patient_barcode>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">AO</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A128</shared:patient_id>
+        <shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">016caf42-4e19-4444-ab5d-6cf1e76c4afa</shared:bcr_patient_uuid>
+        <shared:history_of_neoadjuvant_treatment preferred_name="history_neoadjuvant_treatment" display_order="15" cde="3382737" cde_ver="1.000" xsd_ver="2.4" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467190">No</shared:history_of_neoadjuvant_treatment>
+        <clin_shared:informed_consent_verified preferred_name="patient_consent_status" display_order="72" cde="3288361" cde_ver="1.000" xsd_ver="2.4" tier="1" owner="TSS" procurement_status="Completed" restricted="false">YES</clin_shared:informed_consent_verified>
+        <clin_shared:icd_o_3_site preferred_name="" display_order="9999" cde="3226281" cde_ver="" xsd_ver="2.4" tier="2" owner="TSS" procurement_status="Completed" restricted="false">C50.9</clin_shared:icd_o_3_site>
+        <clin_shared:icd_o_3_histology preferred_name="" display_order="9999" cde="3226275" cde_ver="" xsd_ver="2.4" tier="2" owner="TSS" procurement_status="Completed" restricted="false">8500/3</clin_shared:icd_o_3_histology>
+        <clin_shared:icd_10 preferred_name="" display_order="9999" cde="3226287" cde_ver="" xsd_ver="2.4" tier="2" owner="TSS" procurement_status="Completed" restricted="false">C50.9</clin_shared:icd_10>
+        <clin_shared:days_to_initial_pathologic_diagnosis precision="day" xsd_ver="1.12" tier="1" cde="3131740" owner="TSS" procurement_status="Completed" preferred_name="initial_pathologic_dx_days_to" display_order="9999" cde_ver="1.000">0</clin_shared:days_to_initial_pathologic_diagnosis>
+        <clin_shared:age_at_initial_pathologic_diagnosis precision="day" xsd_ver="1.12" tier="1" cde="2006657" owner="TSS" procurement_status="Completed">61</clin_shared:age_at_initial_pathologic_diagnosis>
+        <clin_shared:year_of_initial_pathologic_diagnosis preferred_name="initial_pathologic_dx_year" display_order="34" cde="2896960" cde_ver="1.000" xsd_ver="1.12" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467207">2002</clin_shared:year_of_initial_pathologic_diagnosis>
+        <clin_shared:ethnicity preferred_name="ethnicity" display_order="13" cde="2192217" cde_ver="2.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467188">NOT HISPANIC OR LATINO</clin_shared:ethnicity>
+        <clin_shared:person_neoplasm_cancer_status preferred_name="tumor_status" display_order="16" cde="2759550" cde_ver="1.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467186">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
+        <clin_shared:primary_lymph_node_presentation_assessment preferred_name="lymph_nodes_examined" display_order="47" cde="2200396" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        <clin_shared:lymph_node_examined_count preferred_name="lymph_nodes_examined_count" display_order="48" cde="3" cde_ver="3.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467219">15</clin_shared:lymph_node_examined_count>
+        <brca_shared:er_detection_method_text preferred_name="er_positivity_method" display_order="63" cde="69" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467232"/>
+        <brca_shared:pgr_detection_method_text preferred_name="pr_positivity_define_method" display_order="69" cde="785" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467237"/>
+        <brca:anatomic_neoplasm_subdivisions>
+            <clin_shared:anatomic_neoplasm_subdivision preferred_name="anatomic_organ_subdivision" display_order="9999" cde="3108203" cde_ver="2.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467202">Right Lower Outer Quadrant</clin_shared:anatomic_neoplasm_subdivision>
+            <clin_shared:anatomic_neoplasm_subdivision preferred_name="anatomic_organ_subdivision" display_order="9999" cde="3108203" cde_ver="2.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467202">Right</clin_shared:anatomic_neoplasm_subdivision>
+        </brca:anatomic_neoplasm_subdivisions>
+        <brca_shared:her2_neu_chromosone_17_signal_ratio_value preferred_name="her2_cent17_ratio" display_order="79" cde="2497552" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467247">1.0</brca_shared:her2_neu_chromosone_17_signal_ratio_value>
+        <brca:axillary_lymph_node_stage_method_type preferred_name="axillary_staging_method" display_order="44" cde="2516112" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467216">Sentinel node biopsy alone</brca:axillary_lymph_node_stage_method_type>
+        <brca:axillary_lymph_node_stage_other_method_descriptive_text preferred_name="axillary_staging_method_other" display_order="45" cde="3124496" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467217"/>
+        <brca:breast_carcinoma_surgical_procedure_name preferred_name="surgical_procedure_first" display_order="38" cde="2739580" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467210">Lumpectomy</brca:breast_carcinoma_surgical_procedure_name>
+        <brca:breast_neoplasm_other_surgical_procedure_descriptive_text preferred_name="surgery_for_positive_margins_other" display_order="42" cde="3124493" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467214" xsi:nil="true"/>
+        <brca:breast_carcinoma_primary_surgical_procedure_name preferred_name="surgery_for_positive_margins" display_order="41" cde="1218" cde_ver="3.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467213"/>
+        <brca:surgical_procedure_purpose_other_text preferred_name="first_surgical_procedure_other" display_order="39" cde="3020338" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467211"/>
+        <shared:histological_type preferred_name="histologic_diagnosis" display_order="3" cde="3081934" cde_ver="3.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467203">Infiltrating Ductal Carcinoma</shared:histological_type>
+        <shared:histological_type_other preferred_name="histologic_diagnosis_other" display_order="31" cde="3124492" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467204" xsi:nil="true"/>
+        <clin_shared:menopause_status preferred_name="menopause_status" display_order="11" cde="2957270" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467184">Post (prior bilateral ovariectomy OR >12 mo since LMP with no prior hysterectomy)</clin_shared:menopause_status>
+        <brca_shared:breast_carcinoma_progesterone_receptor_status preferred_name="pr_status_by_ihc" display_order="64" cde="2957357" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467233">Negative</brca_shared:breast_carcinoma_progesterone_receptor_status>
+        <brca:cytokeratin_immunohistochemistry_staining_method_micrometastasis_indicator preferred_name="micromet_detection_by_ihc" display_order="46" cde="3086152" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467218">YES</brca:cytokeratin_immunohistochemistry_staining_method_micrometastasis_indicator>
+        <brca:breast_carcinoma_immunohistochemistry_er_pos_finding_scale preferred_name="er_positivity_scale_used" display_order="60" cde="3203081" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        <brca_shared:immunohistochemistry_positive_cell_score preferred_name="er_ihc_score" display_order="61" cde="2230166" cde_ver="3.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467230"/>
+        <brca_shared:her2_immunohistochemistry_level_result preferred_name="her2_ihc_score" display_order="72" cde="2178402" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467240">0</brca_shared:her2_immunohistochemistry_level_result>
+        <brca:breast_cancer_surgery_margin_status preferred_name="margin_status_reexcision" display_order="43" cde="2241252" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467215"/>
+        <clin_shared:margin_status preferred_name="margin_status" display_order="40" cde="3114007" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467212">Negative</clin_shared:margin_status>
+        <clin_shared:initial_pathologic_diagnosis_method preferred_name="method_initial_path_dx" display_order="36" cde="2757941" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467208">Fine needle aspiration biopsy</clin_shared:initial_pathologic_diagnosis_method>
+        <clin_shared:init_pathology_dx_method_other preferred_name="method_initial_path_dx_other" display_order="37" cde="2757948" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467209" xsi:nil="true"/>
+        <brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type preferred_name="her2_fish_status" display_order="75" cde="2854089" cde_ver="1.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467243">Negative</brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type>
+        <brca_shared:breast_carcinoma_estrogen_receptor_status preferred_name="er_status_by_ihc" display_order="58" cde="2957359" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467228">Negative</brca_shared:breast_carcinoma_estrogen_receptor_status>
+        <brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="her2_status_by_ihc" display_order="70" cde="2957563" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467238">Negative</brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status>
+        <clin_shared:number_of_lymphnodes_positive_by_ihc preferred_name="lymph_nodes_examined_ihc_count" display_order="50" cde="3086383" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467221">0</clin_shared:number_of_lymphnodes_positive_by_ihc>
+        <clin_shared:number_of_lymphnodes_positive_by_he preferred_name="lymph_nodes_examined_he_count" display_order="49" cde="3086388" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467220">0</clin_shared:number_of_lymphnodes_positive_by_he>
+        <brca_shared:pos_finding_progesterone_receptor_other_measurement_scale_text preferred_name="pr_positivity_scale_other" display_order="68" cde="3086857" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467236"/>
+        <brca_shared:positive_finding_estrogen_receptor_other_measurement_scale_text preferred_name="er_positivity_scale_other" display_order="62" cde="3086851" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467231"/>
+        <brca_shared:her2_erbb_pos_finding_cell_percent_category preferred_name="her2_ihc_percent_positive" display_order="71" cde="3086980" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467239">&lt;10%</brca_shared:her2_erbb_pos_finding_cell_percent_category>
+        <brca_shared:pos_finding_her2_erbb2_other_measurement_scale_text preferred_name="her2_positivity_scale_other" display_order="73" cde="3087479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467241"/>
+        <brca_shared:her2_erbb_method_calculation_method_text preferred_name="her2_positivity_method_text" display_order="74" cde="3087487" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467242">3+ Positive</brca_shared:her2_erbb_method_calculation_method_text>
+        <brca_shared:her2_neu_and_centromere_17_copy_number_analysis_input_total_number_count preferred_name="her2_and_cent17_cells_count" display_order="78" cde="3087902" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467246">30</brca_shared:her2_neu_and_centromere_17_copy_number_analysis_input_total_number_count>
+        <brca_shared:her2_and_centromere_17_positive_finding_other_measurement_scale_text preferred_name="her2_and_cent17_scale_other" display_order="80" cde="3087923" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467248"/>
+        <brca_shared:her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="her2_fish_method" display_order="81" cde="3087929" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467249">>=2.0 Positive</brca_shared:her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text>
+        <clin_shared:tissue_prospective_collection_indicator preferred_name="prospective_collection" display_order="4" cde="3088492" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467178">NO</clin_shared:tissue_prospective_collection_indicator>
+        <clin_shared:tissue_retrospective_collection_indicator preferred_name="retrospective_collection" display_order="5" cde="3088528" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467179">YES</clin_shared:tissue_retrospective_collection_indicator>
+        <brca_shared:fluorescence_in_situ_hybridization_diagnostic_procedure_chromosome_17_signal_result_range preferred_name="cent17_copy_number" display_order="77" cde="3104295" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467245">49</brca_shared:fluorescence_in_situ_hybridization_diagnostic_procedure_chromosome_17_signal_result_range>
+        <brca:first_nonlymph_node_metastasis_anatomic_sites>
+            <clin_shared:metastatic_site_at_diagnosis preferred_name="metastasis_site" display_order="56" cde="3124499" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467226"/>
+            <clin_shared:metastatic_site_at_diagnosis_other preferred_name="metastasis_site_other" display_order="57" cde="3124503" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467227"/>
+        </brca:first_nonlymph_node_metastasis_anatomic_sites>
+        <brca_shared:er_level_cell_percentage_category preferred_name="er_status_ihc_Percent_Positive" display_order="59" cde="3128341" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467229">&lt;10%</brca_shared:er_level_cell_percentage_category>
+        <brca_shared:progesterone_receptor_level_cell_percent_category preferred_name="pr_status_ihc_percent_positive" display_order="65" cde="3128342" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467234">&lt;10%</brca_shared:progesterone_receptor_level_cell_percent_category>
+        <brca:distant_metastasis_present_ind2 preferred_name="metastatic_tumor_indicator" display_order="999" cde="2194698" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_status preferred_name="nte_er_status" display_order="97" cde="3131865" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467250"/>
+        <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_level_cell_percent_category preferred_name="nte_er_status_ihc__positive" display_order="98" cde="3131869" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467251"/>
+        <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_pos_cell_score preferred_name="nte_er_ihc_intensity_score" display_order="100" cde="3131873" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467252"/>
+        <brca_shared:pos_finding_metastatic_breast_carcinoma_estrogen_receptor_other_measuremenet_scale_text preferred_name="nte_er_positivity_other_scale" display_order="101" cde="3131877" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467253"/>
+        <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_detection_method_text preferred_name="nte_er_positivity_define_method" display_order="102" cde="3131881" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467254"/>
+        <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_status preferred_name="nte_pr_status_by_ihc" display_order="103" cde="3131884" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467255"/>
+        <brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="nte_her2_status" display_order="109" cde="3131997" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467260"/>
+        <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_level_cell_percent_category preferred_name="nte_pr_status_ihc__positive" display_order="104" cde="3131891" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467256"/>
+        <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_pr_pos_cell_score preferred_name="nte_pr_ihc_intensity_score" display_order="106" cde="3131988" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467257"/>
+        <brca_shared:metastatic_breast_carcinoma_pos_finding_progesterone_receptor_other_measure_scale_text preferred_name="nte_pr_positivity_other_scale" display_order="107" cde="3131992" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467258"/>
+        <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_detection_method_text preferred_name="nte_pr_positivity_define_method" display_order="108" cde="3131993" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467259"/>
+        <brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_cell_percent_category preferred_name="nte_her2_status_ihc__positive" display_order="110" cde="3132322" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467261"/>
+        <brca_shared:metastatic_breast_carcinoma_erbb2_immunohistochemistry_level_result preferred_name="nte_her2_positivity_ihc_score" display_order="111" cde="3132444" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467262"/>
+        <brca_shared:metastatic_breast_carcinoma_pos_finding_her2_erbb2_other_measure_scale_text preferred_name="nte_her2_positivity_other_scale" display_order="112" cde="3132448" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467263"/>
+        <brca_shared:metastatic_breast_carcinoma_her2_erbb_method_calculation_method_text preferred_name="nte_her2_positivity_method" display_order="113" cde="3132452" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467264"/>
+        <brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_in_situ_hybridization_outcome_type preferred_name="nte_her2_fish_status" display_order="114" cde="3132455" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467265"/>
+        <brca_shared:metastatic_breast_carcinoma_fluorescence_in_situ_hybridization_diagnostic_proc_centromere_17_signal_result_range preferred_name="nte_cent_17_signal_number" display_order="116" cde="3132887" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467267"/>
+        <brca_shared:her2_neu_and_centromere_17_copy_number_metastatic_breast_carcinoma_analysis_input_total_number_count preferred_name="her2_cent17_counted_cells_count" display_order="117" cde="3132899" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467268"/>
+        <brca_shared:metastatic_breast_carcinoma_her2_neu_chromosone_17_signal_ratio_value preferred_name="nte_cent_17_her2_ratio" display_order="118" cde="3132903" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467269"/>
+        <brca_shared:metastatic_breast_carcinoma_pos_finding_other_scale_measurement_text preferred_name="nte_cent17_her2_other_scale" display_order="119" cde="3132907" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467270"/>
+        <brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="nte_her2_fish_define_method" display_order="120" cde="3132910" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467271"/>
+        <brca_shared:her2_neu_metastatic_breast_carcinoma_copy_analysis_input_total_number preferred_name="nte_her2_signal_number" display_order="115" cde="3133734" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467266"/>
+        <brca_shared:her2_neu_breast_carcinoma_copy_analysis_input_total_number preferred_name="her2_copy_number" display_order="76" cde="3133738" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467244">52</brca_shared:her2_neu_breast_carcinoma_copy_analysis_input_total_number>
+        <brca:breast_carcinoma_immunohistochemistry_progesterone_receptor_pos_finding_scale preferred_name="pr_positivity_scale_used" display_order="66" cde="3203083" cde_ver="1.000" xsd_ver="2.4.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        <brca_shared:breast_carcinoma_immunohistochemistry_pos_cell_score preferred_name="pr_positivity_ihc_intensity_score" display_order="67" cde="3133874" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467235"/>
+        <shared_stage:stage_event system="AJCC">
+            <shared_stage:system_version preferred_name="ajcc_staging_edition" display_order="51" cde="2722309" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1080068"/>
+            <shared_stage:clinical_stage preferred_name="ajcc_clinical_tumor_stage" display_order="9999" cde="3440332" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+            <shared_stage:pathologic_stage preferred_name="ajcc_pathologic_tumor_stage" display_order="55" cde="3203222" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467225">Stage IIA</shared_stage:pathologic_stage>
+            <shared_stage:tnm_categories>
+                <shared_stage:clinical_categories>
+                    <shared_stage:clinical_T preferred_name="ajcc_tumor_clinical_ct" display_order="9999" cde="3440328" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                    <shared_stage:clinical_N preferred_name="ajcc_nodes_clinical_cn" display_order="9999" cde="3440330" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                    <shared_stage:clinical_M preferred_name="ajcc_metastasis_clinical_cm" display_order="9999" cde="3440331" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                </shared_stage:clinical_categories>
+                <shared_stage:pathologic_categories>
+                    <shared_stage:pathologic_T preferred_name="ajcc_tumor_pathologic_pt" display_order="52" cde="3045435" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467222">T2</shared_stage:pathologic_T>
+                    <shared_stage:pathologic_N preferred_name="ajcc_nodes_pathologic_pn" display_order="53" cde="3203106" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467223">N0 (i-)</shared_stage:pathologic_N>
+                    <shared_stage:pathologic_M preferred_name="ajcc_metastasis_pathologic_pm" display_order="54" cde="3045439" cde_ver="1.000" xsd_ver="2.6" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467224">M0</shared_stage:pathologic_M>
+                </shared_stage:pathologic_categories>
+            </shared_stage:tnm_categories>
+            <shared_stage:psa>
+                <shared_stage:psa_value preferred_name="psa_most_recent_results" display_order="9999" cde="3351903" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                <shared_stage:days_to_psa precision="day" xsd_ver="2.6" tier="2" cde="3414608" owner="TSS" procurement_status="Not Applicable" preferred_name="days_to_psa_most_recent" display_order="9999" cde_ver="1.000"/>
+            </shared_stage:psa>
+            <shared_stage:gleason_grading>
+                <shared_stage:gleason_score preferred_name="gleason_score" display_order="9999" cde="2534619" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                <shared_stage:primary_pattern preferred_name="gleason_pattern_primary" display_order="9999" cde="2534617" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                <shared_stage:secondary_pattern preferred_name="gleason_pattern_secondary" display_order="9999" cde="2534618" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                <shared_stage:tertiary_pattern preferred_name="gleason_pattern_tertiary" display_order="9999" cde="2783875" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+            </shared_stage:gleason_grading>
+            <shared_stage:ann_arbor>
+                <shared_stage:b_symptoms preferred_name="b_symptoms_present_indicator" display_order="9999" cde="2902402" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                <shared_stage:extranodal_involvement preferred_name="extranodal_lymphomatous_involvement" display_order="9999" cde="3364582" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+            </shared_stage:ann_arbor>
+            <shared_stage:serum_markers preferred_name="" display_order="9999" cde="3901772" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+            <shared_stage:igcccg_stage preferred_name="" display_order="9999" cde="3901822" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+            <shared_stage:masaoka_stage preferred_name="" display_order="9999" cde="3952848" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+        </shared_stage:stage_event>
+        <clin_shared:postoperative_rx_tx preferred_name="pharmaceutical_tx_adjuvant" display_order="27" cde="3397567" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        <clin_shared:radiation_therapy preferred_name="radiation_treatment_adjuvant" display_order="26" cde="2005312" cde_ver="4.000" xsd_ver="1.9" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        <brca_nte:new_tumor_events>
+            <nte:new_tumor_event_after_initial_treatment preferred_name="new_tumor_event_dx_indicator" display_order="82" cde="3121376" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
+        </brca_nte:new_tumor_events>
+        <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467176">7</clin_shared:day_of_form_completion>
+        <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467175">12</clin_shared:month_of_form_completion>
+        <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467177">2010</clin_shared:year_of_form_completion>
+        <brca:follow_ups>
+            <follow_up_v1.5:follow_up version="1.5" sequence="1">
+                <clin_shared:bcr_followup_barcode preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-F5879</clin_shared:bcr_followup_barcode>
+                <clin_shared:bcr_followup_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">2A6DEEAE-C739-4E88-8095-431BF42899E3</clin_shared:bcr_followup_uuid>
+                <clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Completed" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000">2877</clin_shared:days_to_last_followup>
+                <clin_shared:vital_status preferred_name="vital_status" display_order="17" cde="5" cde_ver="5.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467280">Alive</clin_shared:vital_status>
+                <clin_shared:person_neoplasm_cancer_status preferred_name="tumor_status" display_order="16" cde="2759550" cde_ver="1.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467281">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
+                <clin_shared:days_to_last_known_alive precision="day" xsd_ver="2.1" tier="2" cde="" owner="TSS" procurement_status="Not Available" preferred_name="" display_order="9999" cde_ver=""/>
+                <clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Not Applicable" preferred_name="death_days_to" display_order="25" cde_ver="1.000"/>
+                <clin_shared:radiation_therapy preferred_name="radiation_treatment_adjuvant" display_order="26" cde="2005312" cde_ver="4.000" xsd_ver="1.9" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467288">YES</clin_shared:radiation_therapy>
+                <clin_shared:postoperative_rx_tx preferred_name="pharmaceutical_tx_adjuvant" display_order="27" cde="3397567" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467289">YES</clin_shared:postoperative_rx_tx>
+                <nte:days_to_new_tumor_event_after_initial_treatment precision="day" xsd_ver="2.2" tier="1" cde="3392464" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_dx_days_to" display_order="89" cde_ver="1.000"/>
+                <nte:additional_surgery_locoregional_procedure preferred_name="new_tumor_event_surgery" display_order="999" cde="3008755" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467293"/>
+                <nte:days_to_additional_surgery_locoregional_procedure precision="day" xsd_ver="2.2" tier="2" cde="3408572" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to_loco" display_order="9999" cde_ver="1.000"/>
+                <brca_shared:breast_carcinoma_estrogen_receptor_status preferred_name="er_status_by_ihc" display_order="58" cde="2957359" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467297"/>
+                <brca_shared:er_level_cell_percentage_category preferred_name="er_status_ihc_Percent_Positive" display_order="59" cde="3128341" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467298"/>
+                <brca_shared:immunohistochemistry_positive_cell_score preferred_name="er_ihc_score" display_order="61" cde="2230166" cde_ver="3.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467299"/>
+                <brca_shared:positive_finding_estrogen_receptor_other_measurement_scale_text preferred_name="er_positivity_scale_other" display_order="62" cde="3086851" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467300"/>
+                <brca_shared:er_detection_method_text preferred_name="er_positivity_method" display_order="63" cde="69" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467301"/>
+                <brca_shared:breast_carcinoma_progesterone_receptor_status preferred_name="pr_status_by_ihc" display_order="64" cde="2957357" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467302"/>
+                <brca_shared:progesterone_receptor_level_cell_percent_category preferred_name="pr_status_ihc_percent_positive" display_order="65" cde="3128342" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467303"/>
+                <brca_shared:breast_carcinoma_immunohistochemistry_pos_cell_score preferred_name="pr_positivity_ihc_intensity_score" display_order="67" cde="3133874" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467304"/>
+                <brca_shared:pos_finding_progesterone_receptor_other_measurement_scale_text preferred_name="pr_positivity_scale_other" display_order="68" cde="3086857" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467305"/>
+                <brca_shared:pgr_detection_method_text preferred_name="pr_positivity_define_method" display_order="69" cde="785" cde_ver="2.310" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467306"/>
+                <brca_shared:lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="her2_status_by_ihc" display_order="70" cde="2957563" cde_ver="2.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467307"/>
+                <brca_shared:her2_erbb_pos_finding_cell_percent_category preferred_name="her2_ihc_percent_positive" display_order="71" cde="3086980" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467308"/>
+                <brca_shared:her2_immunohistochemistry_level_result preferred_name="her2_ihc_score" display_order="72" cde="2178402" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467309"/>
+                <brca_shared:pos_finding_her2_erbb2_other_measurement_scale_text preferred_name="her2_positivity_scale_other" display_order="73" cde="3087479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467310"/>
+                <brca_shared:her2_erbb_method_calculation_method_text preferred_name="her2_positivity_method_text" display_order="74" cde="3087487" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467311"/>
+                <brca_shared:lab_procedure_her2_neu_in_situ_hybrid_outcome_type preferred_name="her2_fish_status" display_order="75" cde="2854089" cde_ver="1.000" xsd_ver="2.2" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467312"/>
+                <brca_shared:her2_neu_breast_carcinoma_copy_analysis_input_total_number preferred_name="her2_copy_number" display_order="76" cde="3133738" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467313"/>
+                <brca_shared:fluorescence_in_situ_hybridization_diagnostic_procedure_chromosome_17_signal_result_range preferred_name="cent17_copy_number" display_order="77" cde="3104295" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467314"/>
+                <brca_shared:her2_neu_and_centromere_17_copy_number_analysis_input_total_number_count preferred_name="her2_and_cent17_cells_count" display_order="78" cde="3087902" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467315"/>
+                <brca_shared:her2_neu_chromosone_17_signal_ratio_value preferred_name="her2_cent17_ratio" display_order="79" cde="2497552" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467316"/>
+                <brca_shared:her2_and_centromere_17_positive_finding_other_measurement_scale_text preferred_name="her2_and_cent17_scale_other" display_order="80" cde="3087923" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467317"/>
+                <brca_shared:her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="her2_fish_method" display_order="81" cde="3087929" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467318"/>
+                <nte:additional_surgery_metastatic_procedure preferred_name="new_tumor_event_surgery_met" display_order="999" cde="3008757" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467319"/>
+                <nte:days_to_additional_surgery_metastatic_procedure precision="day" xsd_ver="2.2" tier="2" cde="3408682" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to_met" display_order="9999" cde_ver="1.000"/>
+                <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_status preferred_name="nte_er_status" display_order="97" cde="3131865" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467323"/>
+                <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_level_cell_percent_category preferred_name="nte_er_status_ihc__positive" display_order="98" cde="3131869" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467324"/>
+                <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_pos_cell_score preferred_name="nte_er_ihc_intensity_score" display_order="100" cde="3131873" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467325"/>
+                <brca_shared:pos_finding_metastatic_breast_carcinoma_estrogen_receptor_other_measuremenet_scale_text preferred_name="nte_er_positivity_other_scale" display_order="101" cde="3131877" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467326"/>
+                <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_detection_method_text preferred_name="nte_er_positivity_define_method" display_order="102" cde="3131881" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467327"/>
+                <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_status preferred_name="nte_pr_status_by_ihc" display_order="103" cde="3131884" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467328"/>
+                <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_level_cell_percent_category preferred_name="nte_pr_status_ihc__positive" display_order="104" cde="3131891" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467329"/>
+                <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_pr_pos_cell_score preferred_name="nte_pr_ihc_intensity_score" display_order="106" cde="3131988" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467330"/>
+                <brca_shared:metastatic_breast_carcinoma_pos_finding_progesterone_receptor_other_measure_scale_text preferred_name="nte_pr_positivity_other_scale" display_order="107" cde="3131992" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467331"/>
+                <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_detection_method_text preferred_name="nte_pr_positivity_define_method" display_order="108" cde="3131993" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467332"/>
+                <brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="nte_her2_status" display_order="109" cde="3131997" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467333"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_cell_percent_category preferred_name="nte_her2_status_ihc__positive" display_order="110" cde="3132322" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467334"/>
+                <brca_shared:metastatic_breast_carcinoma_erbb2_immunohistochemistry_level_result preferred_name="nte_her2_positivity_ihc_score" display_order="111" cde="3132444" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467335"/>
+                <brca_shared:metastatic_breast_carcinoma_pos_finding_her2_erbb2_other_measure_scale_text preferred_name="nte_her2_positivity_other_scale" display_order="112" cde="3132448" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467336"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_erbb_method_calculation_method_text preferred_name="nte_her2_positivity_method" display_order="113" cde="3132452" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467337"/>
+                <brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_in_situ_hybridization_outcome_type preferred_name="nte_her2_fish_status" display_order="114" cde="3132455" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467338"/>
+                <brca_shared:her2_neu_metastatic_breast_carcinoma_copy_analysis_input_total_number preferred_name="nte_her2_signal_number" display_order="115" cde="3133734" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467339"/>
+                <brca_shared:metastatic_breast_carcinoma_fluorescence_in_situ_hybridization_diagnostic_proc_centromere_17_signal_result_range preferred_name="nte_cent_17_signal_number" display_order="116" cde="3132887" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467340"/>
+                <brca_shared:her2_neu_and_centromere_17_copy_number_metastatic_breast_carcinoma_analysis_input_total_number_count preferred_name="her2_cent17_counted_cells_count" display_order="117" cde="3132899" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467341"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_neu_chromosone_17_signal_ratio_value preferred_name="nte_cent_17_her2_ratio" display_order="118" cde="3132903" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467342"/>
+                <brca_shared:metastatic_breast_carcinoma_pos_finding_other_scale_measurement_text preferred_name="nte_cent17_her2_other_scale" display_order="119" cde="3132907" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467343"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="nte_her2_fish_define_method" display_order="120" cde="3132910" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467344"/>
+                <nte:additional_radiation_therapy preferred_name="new_tumor_event_radiation_tx" display_order="95" cde="3427615" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467345"/>
+                <nte:additional_pharmaceutical_therapy preferred_name="new_tumor_event_pharmaceutical_tx" display_order="96" cde="3427616" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467346"/>
+                <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467275">7</clin_shared:day_of_form_completion>
+                <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467274">12</clin_shared:month_of_form_completion>
+                <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467276">2010</clin_shared:year_of_form_completion>
+            </follow_up_v1.5:follow_up>
+            <follow_up_v2.1:follow_up version="2.1" sequence="2">
+                <clin_shared:bcr_followup_barcode preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-F19405</clin_shared:bcr_followup_barcode>
+                <clin_shared:bcr_followup_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false">CAAF9EFF-2A56-4182-A1F0-115AA2CDDAED</clin_shared:bcr_followup_uuid>
+                <clin_shared:followup_case_report_form_submission_reason preferred_name="followup_reason" display_order="999" cde="3233305" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454153">Scheduled Follow-up Submission</clin_shared:followup_case_report_form_submission_reason>
+                <clin_shared:radiation_therapy preferred_name="radiation_treatment_adjuvant" display_order="26" cde="2005312" cde_ver="4.000" xsd_ver="1.9" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454160">YES</clin_shared:radiation_therapy>
+                <clin_shared:postoperative_rx_tx preferred_name="pharmaceutical_tx_adjuvant" display_order="27" cde="3397567" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454161">YES</clin_shared:postoperative_rx_tx>
+                <clin_shared:vital_status preferred_name="vital_status" display_order="17" cde="5" cde_ver="5.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454162">Alive</clin_shared:vital_status>
+                <clin_shared:days_to_last_followup precision="day" xsd_ver="1.12" tier="1" cde="3008273" owner="TSS" procurement_status="Completed" preferred_name="last_contact_days_to" display_order="21" cde_ver="1.000">3248</clin_shared:days_to_last_followup>
+                <clin_shared:days_to_death precision="day" xsd_ver="1.12" tier="1" cde="3165475" owner="TSS" procurement_status="Not Applicable" preferred_name="death_days_to" display_order="25" cde_ver="1.000"/>
+                <clin_shared:person_neoplasm_cancer_status preferred_name="tumor_status" display_order="16" cde="2759550" cde_ver="1.000" xsd_ver="1.9" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454169">TUMOR FREE</clin_shared:person_neoplasm_cancer_status>
+                <nte:new_tumor_event_after_initial_treatment preferred_name="new_tumor_event_dx_indicator" display_order="82" cde="3121376" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454170">NO</nte:new_tumor_event_after_initial_treatment>
+                <nte:days_to_new_tumor_event_after_initial_treatment precision="day" xsd_ver="2.2" tier="1" cde="3392464" owner="TSS" procurement_status="Not Applicable" preferred_name="new_tumor_event_dx_days_to" display_order="89" cde_ver="1.000"/>
+                <nte:new_neoplasm_event_type preferred_name="new_tumor_event_type" display_order="83" cde="3119721" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454174"/>
+                <nte:new_neoplasm_event_occurrence_anatomic_site preferred_name="new_tumor_event_site" display_order="84" cde="3108271" cde_ver="2.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454175"/>
+                <nte:new_neoplasm_occurrence_anatomic_site_text preferred_name="new_tumor_event_site_other" display_order="85" cde="3128033" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454176"/>
+                <nte:additional_surgery_locoregional_procedure preferred_name="new_tumor_event_surgery" display_order="999" cde="3008755" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454177"/>
+                <nte:days_to_additional_surgery_metastatic_procedure precision="day" xsd_ver="2.2" tier="2" cde="3408682" owner="TSS" procurement_status="Not Available" preferred_name="new_tumor_event_surgery_days_to_met" display_order="9999" cde_ver="1.000"/>
+                <nte:additional_radiation_therapy preferred_name="new_tumor_event_radiation_tx" display_order="95" cde="3427615" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454181"/>
+                <nte:additional_pharmaceutical_therapy preferred_name="new_tumor_event_pharmaceutical_tx" display_order="96" cde="3427616" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454182"/>
+                <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_status preferred_name="nte_er_status" display_order="97" cde="3131865" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454183"/>
+                <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_level_cell_percent_category preferred_name="nte_er_status_ihc__positive" display_order="98" cde="3131869" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454184"/>
+                <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_positive_finding_scale_type preferred_name="nte_er_positivity_scale_used" display_order="99" cde="3203082" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454185"/>
+                <brca_shared:pos_finding_metastatic_breast_carcinoma_estrogen_receptor_other_measuremenet_scale_text preferred_name="nte_er_positivity_other_scale" display_order="101" cde="3131877" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454186"/>
+                <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_er_pos_cell_score preferred_name="nte_er_ihc_intensity_score" display_order="100" cde="3131873" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454187"/>
+                <brca_shared:metastatic_breast_carcinoma_estrogen_receptor_detection_method_text preferred_name="nte_er_positivity_define_method" display_order="102" cde="3131881" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454188"/>
+                <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_status preferred_name="nte_pr_status_by_ihc" display_order="103" cde="3131884" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454189"/>
+                <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_level_cell_percent_category preferred_name="nte_pr_status_ihc__positive" display_order="104" cde="3131891" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454190"/>
+                <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_progesterone_receptor_positive_finding_scale_type preferred_name="nte_pr_positivity_scale_used" display_order="105" cde="3203085" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454191"/>
+                <brca_shared:metastatic_breast_carcinoma_pos_finding_progesterone_receptor_other_measure_scale_text preferred_name="nte_pr_positivity_other_scale" display_order="107" cde="3131992" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454192"/>
+                <brca_shared:metastatic_breast_carcinoma_immunohistochemistry_pr_pos_cell_score preferred_name="nte_pr_ihc_intensity_score" display_order="106" cde="3131988" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454193"/>
+                <brca_shared:metastatic_breast_carcinoma_progesterone_receptor_detection_method_text preferred_name="nte_pr_positivity_define_method" display_order="108" cde="3131993" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454194"/>
+                <brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_immunohistochemistry_receptor_status preferred_name="nte_her2_status" display_order="109" cde="3131997" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454195"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_cell_percent_category preferred_name="nte_her2_status_ihc__positive" display_order="110" cde="3132322" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454196"/>
+                <brca_shared:metastatic_breast_carcinoma_erbb2_immunohistochemistry_level_result preferred_name="nte_her2_positivity_ihc_score" display_order="111" cde="3132444" cde_ver="2.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454197"/>
+                <brca_shared:metastatic_breast_carcinoma_pos_finding_her2_erbb2_other_measure_scale_text preferred_name="nte_her2_positivity_other_scale" display_order="112" cde="3132448" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454198"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_erbb_method_calculation_method_text preferred_name="nte_her2_positivity_method" display_order="113" cde="3132452" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454199"/>
+                <brca_shared:metastatic_breast_carcinoma_lab_proc_her2_neu_in_situ_hybridization_outcome_type preferred_name="nte_her2_fish_status" display_order="114" cde="3132455" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454200"/>
+                <brca_shared:her2_neu_metastatic_breast_carcinoma_copy_analysis_input_total_number preferred_name="nte_her2_signal_number" display_order="115" cde="3133734" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454201"/>
+                <brca_shared:metastatic_breast_carcinoma_fluorescence_in_situ_hybridization_diagnostic_proc_centromere_17_signal_result_range preferred_name="nte_cent_17_signal_number" display_order="116" cde="3132887" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454202"/>
+                <brca_shared:her2_neu_and_centromere_17_copy_number_metastatic_breast_carcinoma_analysis_input_total_number_count preferred_name="her2_cent17_counted_cells_count" display_order="117" cde="3132899" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454203"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_neu_chromosone_17_signal_ratio_value preferred_name="nte_cent_17_her2_ratio" display_order="118" cde="3132903" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454204"/>
+                <brca_shared:metastatic_breast_carcinoma_pos_finding_other_scale_measurement_text preferred_name="nte_cent17_her2_other_scale" display_order="119" cde="3132907" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454205"/>
+                <brca_shared:metastatic_breast_carcinoma_her2_erbb_pos_finding_fluorescence_in_situ_hybridization_calculation_method_text preferred_name="nte_her2_fish_define_method" display_order="120" cde="3132910" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="1454206"/>
+                <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454151">12</clin_shared:day_of_form_completion>
+                <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454150">12</clin_shared:month_of_form_completion>
+                <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="1454152">2011</clin_shared:year_of_form_completion>
+            </follow_up_v2.1:follow_up>
+        </brca:follow_ups>
+        <rx:drugs>
+            <rx:drug>
+                <rx:tx_on_clinical_trial preferred_name="" display_order="9999" cde="3925111" cde_ver="" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <rx:regimen_number preferred_name="" display_order="9999" cde="2744948" cde_ver="" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470892">1</rx:regimen_number>
+                <rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-D5943</rx:bcr_drug_barcode>
+                <rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">e2154fbe-e02b-44f3-a61a-e08146c61db2</rx:bcr_drug_uuid>
+                <rx:total_dose preferred_name="total_dose" display_order="999" cde="1515" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470901">480</rx:total_dose>
+                <rx:total_dose_units preferred_name="pharmaceutical_tx_total_dose_units" display_order="999" cde="3088785" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470902">mg</rx:total_dose_units>
+                <rx:prescribed_dose preferred_name="prescribed_dose" display_order="999" cde="2184728" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470899">62</rx:prescribed_dose>
+                <rx:prescribed_dose_units preferred_name="pharmaceutical_tx_dose_units" display_order="999" cde="3065815" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470900">mg/m2</rx:prescribed_dose_units>
+                <rx:number_cycles preferred_name="pharma_adjuvant_cycles_count" display_order="999" cde="62590" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470898">4</rx:number_cycles>
+                <rx:days_to_drug_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3392465" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_started_days_to" display_order="26" cde_ver="1.000">82</rx:days_to_drug_therapy_start>
+                <rx:days_to_drug_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3392470" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_ended_days_to" display_order="16" cde_ver="1.000">124</rx:days_to_drug_therapy_end>
+                <rx:therapy_types>
+                    <rx:therapy_type preferred_name="pharmaceutical_therapy_type" display_order="7" cde="2793530" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470895">Chemotherapy</rx:therapy_type>
+                    <rx:therapy_type_notes preferred_name="pharma_type_other" display_order="999" cde="2001762" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="470896"/>
+                </rx:therapy_types>
+                <rx:drug_name preferred_name="pharmaceutical_therapy_drug_name" display_order="22" cde="2975232" cde_ver="1.000" xsd_ver="1.10" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470897">Doxorubicin</rx:drug_name>
+                <rx:clinical_trail_drug_classification preferred_name="clinical_trial_drug_classification" display_order="6" cde="3378323" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470893">ADJUVANT</clin_shared:regimen_indication>
+                <clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="470894"/>
+                <rx:route_of_administrations>
+                    <rx:route_of_administration preferred_name="route_of_administration" display_order="999" cde="2003586" cde_ver="6.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470903">IV</rx:route_of_administration>
+                </rx:route_of_administrations>
+                <rx:therapy_ongoing preferred_name="pharmaceutical_tx_ongoing_indicator" display_order="12" cde="3103479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470907">NO</rx:therapy_ongoing>
+                <clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470890">10</clin_shared:day_of_form_completion>
+                <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470889">1</clin_shared:month_of_form_completion>
+                <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470891">2011</clin_shared:year_of_form_completion>
+            </rx:drug>
+            <rx:drug>
+                <rx:tx_on_clinical_trial preferred_name="" display_order="9999" cde="3925111" cde_ver="" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <rx:regimen_number preferred_name="" display_order="9999" cde="2744948" cde_ver="" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470916">1</rx:regimen_number>
+                <rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-D5945</rx:bcr_drug_barcode>
+                <rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">39C00F42-C756-42EC-98DC-BB6F6434718B</rx:bcr_drug_uuid>
+                <rx:total_dose preferred_name="total_dose" display_order="999" cde="1515" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470925">1360</rx:total_dose>
+                <rx:total_dose_units preferred_name="pharmaceutical_tx_total_dose_units" display_order="999" cde="3088785" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470926">mg</rx:total_dose_units>
+                <rx:prescribed_dose preferred_name="prescribed_dose" display_order="999" cde="2184728" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470923">175</rx:prescribed_dose>
+                <rx:prescribed_dose_units preferred_name="pharmaceutical_tx_dose_units" display_order="999" cde="3065815" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470924">mg/m2</rx:prescribed_dose_units>
+                <rx:number_cycles preferred_name="pharma_adjuvant_cycles_count" display_order="999" cde="62590" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470922">4</rx:number_cycles>
+                <rx:days_to_drug_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3392465" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_started_days_to" display_order="26" cde_ver="1.000">160</rx:days_to_drug_therapy_start>
+                <rx:days_to_drug_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3392470" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_ended_days_to" display_order="16" cde_ver="1.000">222</rx:days_to_drug_therapy_end>
+                <rx:therapy_types>
+                    <rx:therapy_type preferred_name="pharmaceutical_therapy_type" display_order="7" cde="2793530" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470919">Chemotherapy</rx:therapy_type>
+                    <rx:therapy_type_notes preferred_name="pharma_type_other" display_order="999" cde="2001762" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="470920"/>
+                </rx:therapy_types>
+                <rx:drug_name preferred_name="pharmaceutical_therapy_drug_name" display_order="22" cde="2975232" cde_ver="1.000" xsd_ver="1.10" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470921">Paclitaxel</rx:drug_name>
+                <rx:clinical_trail_drug_classification preferred_name="clinical_trial_drug_classification" display_order="6" cde="3378323" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470917">ADJUVANT</clin_shared:regimen_indication>
+                <clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="470918"/>
+                <rx:route_of_administrations>
+                    <rx:route_of_administration preferred_name="route_of_administration" display_order="999" cde="2003586" cde_ver="6.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470927">IV</rx:route_of_administration>
+                </rx:route_of_administrations>
+                <rx:therapy_ongoing preferred_name="pharmaceutical_tx_ongoing_indicator" display_order="12" cde="3103479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470931">NO</rx:therapy_ongoing>
+                <clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470914">10</clin_shared:day_of_form_completion>
+                <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470913">1</clin_shared:month_of_form_completion>
+                <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470915">2011</clin_shared:year_of_form_completion>
+            </rx:drug>
+            <rx:drug>
+                <rx:tx_on_clinical_trial preferred_name="" display_order="9999" cde="3925111" cde_ver="" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <rx:regimen_number preferred_name="" display_order="9999" cde="2744948" cde_ver="" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470868">1</rx:regimen_number>
+                <rx:bcr_drug_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-D5942</rx:bcr_drug_barcode>
+                <rx:bcr_drug_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">554dcbf2-b7a5-4237-9b68-7484e41a52ab</rx:bcr_drug_uuid>
+                <rx:total_dose preferred_name="total_dose" display_order="999" cde="1515" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470877">4800</rx:total_dose>
+                <rx:total_dose_units preferred_name="pharmaceutical_tx_total_dose_units" display_order="999" cde="3088785" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470878">mg</rx:total_dose_units>
+                <rx:prescribed_dose preferred_name="prescribed_dose" display_order="999" cde="2184728" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470875">619</rx:prescribed_dose>
+                <rx:prescribed_dose_units preferred_name="pharmaceutical_tx_dose_units" display_order="999" cde="3065815" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470876">mg/m2</rx:prescribed_dose_units>
+                <rx:number_cycles preferred_name="pharma_adjuvant_cycles_count" display_order="999" cde="62590" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470874">4</rx:number_cycles>
+                <rx:days_to_drug_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3392465" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_started_days_to" display_order="26" cde_ver="1.000">82</rx:days_to_drug_therapy_start>
+                <rx:days_to_drug_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3392470" owner="TSS" procurement_status="Completed" preferred_name="pharmaceutical_tx_ended_days_to" display_order="16" cde_ver="1.000">124</rx:days_to_drug_therapy_end>
+                <rx:therapy_types>
+                    <rx:therapy_type preferred_name="pharmaceutical_therapy_type" display_order="7" cde="2793530" cde_ver="1.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470871">Chemotherapy</rx:therapy_type>
+                    <rx:therapy_type_notes preferred_name="pharma_type_other" display_order="999" cde="2001762" cde_ver="4.000" xsd_ver="2.1" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="470872"/>
+                </rx:therapy_types>
+                <rx:drug_name preferred_name="pharmaceutical_therapy_drug_name" display_order="22" cde="2975232" cde_ver="1.000" xsd_ver="1.10" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470873">Cyclophosphamide</rx:drug_name>
+                <rx:clinical_trail_drug_classification preferred_name="clinical_trial_drug_classification" display_order="6" cde="3378323" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470869">ADJUVANT</clin_shared:regimen_indication>
+                <clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="470870"/>
+                <rx:route_of_administrations>
+                    <rx:route_of_administration preferred_name="route_of_administration" display_order="999" cde="2003586" cde_ver="6.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470879">IV</rx:route_of_administration>
+                </rx:route_of_administrations>
+                <rx:therapy_ongoing preferred_name="pharmaceutical_tx_ongoing_indicator" display_order="12" cde="3103479" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470883">NO</rx:therapy_ongoing>
+                <clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470866">10</clin_shared:day_of_form_completion>
+                <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470865">1</clin_shared:month_of_form_completion>
+                <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="470867">2011</clin_shared:year_of_form_completion>
+            </rx:drug>
+        </rx:drugs>
+        <rad:radiations>
+            <rad:radiation>
+                <rad:bcr_radiation_barcode xsd_ver="1.15" owner="TSS" procurement_status="Completed" restricted="false">TCGA-AO-A128-R5880</rad:bcr_radiation_barcode>
+                <rad:bcr_radiation_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">a8fd3954-09d3-4dd2-8fa4-4e734dc2918b</rad:bcr_radiation_uuid>
+                <rad:days_to_radiation_therapy_start precision="day" xsd_ver="1.12" tier="2" cde="3008313" owner="TSS" procurement_status="Completed" preferred_name="radiation_therapy_started_days_to" display_order="33" cde_ver="1.000">263</rad:days_to_radiation_therapy_start>
+                <rad:days_to_radiation_therapy_end precision="day" xsd_ver="1.12" tier="2" cde="3008333" owner="TSS" procurement_status="Completed" preferred_name="radiation_therapy_ended_days_to" display_order="17" cde_ver="1.000">308</rad:days_to_radiation_therapy_end>
+                <rad:radiation_type preferred_name="radiation_therapy_type" display_order="4" cde="2842944" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467412">EXTERNAL BEAM</rad:radiation_type>
+                <rad:radiation_type_notes preferred_name="radiation_type_other" display_order="999" cde="2195477" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="467413"/>
+                <rad:radiation_dosage preferred_name="radiation_total_dose" display_order="6" cde="2721441" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467415">6040</rad:radiation_dosage>
+                <rad:units preferred_name="radiation_adjuvant_units" display_order="7" cde="61446" cde_ver="3.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467416">cGy</rad:units>
+                <rad:numfractions preferred_name="radiation_adjuvant_fractions_total" display_order="8" cde="61465" cde_ver="3.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467417">33</rad:numfractions>
+                <rad:anatomic_treatment_site preferred_name="radiation_therapy_site" display_order="5" cde="2793522" cde_ver="1.000" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467414">Primary Tumor Field</rad:anatomic_treatment_site>
+                <clin_shared:regimen_indication preferred_name="therapy_regimen" display_order="999" cde="2793511" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467410">ADJUVANT</clin_shared:regimen_indication>
+                <clin_shared:regimen_indication_notes preferred_name="therapy_regimen_other" display_order="999" cde="2793516" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="467411"/>
+                <rad:radiation_treatment_ongoing preferred_name="radiation_therapy_ongoing_indicator" display_order="13" cde="2842745" cde_ver="1.000" xsd_ver="1.12" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467421">NO</rad:radiation_treatment_ongoing>
+                <rad:course_number preferred_name="course_number" display_order="999" cde="2732184" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467409">1</rad:course_number>
+                <clin_shared:measure_of_response preferred_name="treatment_best_response" display_order="17" cde="2857291" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <clin_shared:day_of_form_completion preferred_name="form_completion_day" display_order="999" cde="2975716" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467407">7</clin_shared:day_of_form_completion>
+                <clin_shared:month_of_form_completion preferred_name="form_completion_month" display_order="999" cde="2975718" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467406">12</clin_shared:month_of_form_completion>
+                <clin_shared:year_of_form_completion preferred_name="form_completion_year" display_order="999" cde="2975720" cde_ver="1.000" xsd_ver="2.2" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="467408">2010</clin_shared:year_of_form_completion>
+            </rad:radiation>
+        </rad:radiations>
+    </brca:patient>
+</brca:tcga_bcr>

data/gdc_data_organized/0a229f95-0ea1-4d63-953e-74f5ec2f3028/1dc5240a-ec06-451e-937e-010e1cd46067_noid_Grn.idat

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
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data/gdc_data_organized/0a229f95-0ea1-4d63-953e-74f5ec2f3028/1dc5240a-ec06-451e-937e-010e1cd46067_noid_Red.idat

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data/gdc_data_organized/0a229f95-0ea1-4d63-953e-74f5ec2f3028/222342ac-43f6-4be5-8cde-4aedde052acd.mirbase21.mirnas.quantification.txt

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+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	9925	7311.772506	N
+hsa-let-7a-2	9853	7258.729925	Y
+hsa-let-7a-3	9963	7339.767202	N
+hsa-let-7b	68534	50489.170473	N
+hsa-let-7c	3045	2243.259172	Y
+hsa-let-7d	852	627.670547	N
+hsa-let-7e	2220	1635.479593	N
+hsa-let-7f-1	2194	1616.325328	N
+hsa-let-7f-2	2311	1702.519523	N
+hsa-let-7g	766	564.314130	N
+hsa-let-7i	662	487.697068	N
+hsa-mir-1-1	6	4.420215	N
+hsa-mir-1-2	8	5.893620	N
+hsa-mir-100	4950	3646.677472	Y
+hsa-mir-101-1	4126	3039.634596	N
+hsa-mir-101-2	4271	3146.456461	N
+hsa-mir-103a-1	13450	9908.648888	Y
+hsa-mir-103a-2	13630	10041.255341	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	12	8.840430	N
+hsa-mir-105-2	6	4.420215	N
+hsa-mir-106a	72	53.042581	Y
+hsa-mir-106b	1634	1203.771917	N
+hsa-mir-107	89	65.566524	Y
+hsa-mir-10a	130654	96253.130986	N
+hsa-mir-10b	91454	67374.392220	N
+hsa-mir-1178	0	0.000000	N
+hsa-mir-1179	0	0.000000	N
+hsa-mir-1180	17	12.523943	N
+hsa-mir-1181	1	0.736703	N
+hsa-mir-1182	0	0.000000	N
+hsa-mir-1183	0	0.000000	N
+hsa-mir-1184-1	0	0.000000	N
+hsa-mir-1184-2	0	0.000000	N
+hsa-mir-1184-3	0	0.000000	N
+hsa-mir-1185-1	1	0.736703	N
+hsa-mir-1185-2	2	1.473405	N
+hsa-mir-1193	0	0.000000	N
+hsa-mir-1197	0	0.000000	N
+hsa-mir-1199	0	0.000000	N
+hsa-mir-1200	0	0.000000	N
+hsa-mir-1202	0	0.000000	N
+hsa-mir-1203	0	0.000000	N
+hsa-mir-1204	0	0.000000	N
+hsa-mir-1205	0	0.000000	N
+hsa-mir-1206	0	0.000000	N
+hsa-mir-1207	0	0.000000	N
+hsa-mir-1208	0	0.000000	N
+hsa-mir-122	0	0.000000	N
+hsa-mir-1224	2	1.473405	N
+hsa-mir-1225	0	0.000000	N
+hsa-mir-1226	2	1.473405	N
+hsa-mir-1227	0	0.000000	N
+hsa-mir-1228	1	0.736703	N
+hsa-mir-1229	2	1.473405	N
+hsa-mir-1231	0	0.000000	N
+hsa-mir-1233-1	0	0.000000	N
+hsa-mir-1233-2	0	0.000000	N
+hsa-mir-1234	0	0.000000	N
+hsa-mir-1236	0	0.000000	N
+hsa-mir-1237	0	0.000000	N
+hsa-mir-1238	0	0.000000	N
+hsa-mir-124-1	0	0.000000	N
+hsa-mir-124-2	0	0.000000	N
+hsa-mir-124-3	0	0.000000	N
+hsa-mir-1243	0	0.000000	N
+hsa-mir-1244-1	0	0.000000	N
+hsa-mir-1244-2	0	0.000000	N
+hsa-mir-1244-3	0	0.000000	N
+hsa-mir-1244-4	0	0.000000	N
+hsa-mir-1245a	1	0.736703	N
+hsa-mir-1245b	0	0.000000	N
+hsa-mir-1246	0	0.000000	N
+hsa-mir-1247	76	55.989391	N
+hsa-mir-1248	8	5.893620	N
+hsa-mir-1249	1	0.736703	N
+hsa-mir-1250	0	0.000000	N
+hsa-mir-1251	0	0.000000	N
+hsa-mir-1252	0	0.000000	N
+hsa-mir-1253	0	0.000000	N
+hsa-mir-1254-1	0	0.000000	N
+hsa-mir-1254-2	0	0.000000	N
+hsa-mir-1255a	0	0.000000	N
+hsa-mir-1255b-1	0	0.000000	N
+hsa-mir-1255b-2	0	0.000000	N
+hsa-mir-1256	0	0.000000	N
+hsa-mir-1257	0	0.000000	N
+hsa-mir-1258	4	2.946810	N
+hsa-mir-125a	1980	1458.670989	N
+hsa-mir-125b-1	305	224.694268	N
+hsa-mir-125b-2	284	209.223516	N
+hsa-mir-126	4886	3599.528510	N
+hsa-mir-1260a	0	0.000000	N
+hsa-mir-1260b	0	0.000000	N
+hsa-mir-1261	0	0.000000	N
+hsa-mir-1262	0	0.000000	N
+hsa-mir-1263	0	0.000000	N
+hsa-mir-1264	0	0.000000	N
+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	16	11.787240	N
+hsa-mir-1267	0	0.000000	N
+hsa-mir-1268a	0	0.000000	N
+hsa-mir-1268b	0	0.000000	N
+hsa-mir-1269a	456	335.936349	N
+hsa-mir-1269b	46	33.888316	N
+hsa-mir-127	763	562.104022	N
+hsa-mir-1270	3	2.210108	N
+hsa-mir-1271	4	2.946810	N
+hsa-mir-1272	0	0.000000	N
+hsa-mir-1273a	0	0.000000	N
+hsa-mir-1273c	0	0.000000	N
+hsa-mir-1273d	0	0.000000	N
+hsa-mir-1273e	0	0.000000	N
+hsa-mir-1273f	0	0.000000	N
+hsa-mir-1273g	0	0.000000	N
+hsa-mir-1273h	0	0.000000	N
+hsa-mir-1275	0	0.000000	N
+hsa-mir-1276	0	0.000000	N
+hsa-mir-1277	1	0.736703	N
+hsa-mir-1278	0	0.000000	N
+hsa-mir-1279	0	0.000000	N
+hsa-mir-128-1	160	117.872403	N
+hsa-mir-128-2	114	83.984087	N
+hsa-mir-1281	0	0.000000	N
+hsa-mir-1282	0	0.000000	N
+hsa-mir-1283-1	0	0.000000	N
+hsa-mir-1283-2	0	0.000000	N
+hsa-mir-1284	1	0.736703	N
+hsa-mir-1285-1	1	0.736703	N
+hsa-mir-1285-2	0	0.000000	N
+hsa-mir-1286	0	0.000000	N
+hsa-mir-1287	24	17.680860	N
+hsa-mir-1288	1	0.736703	N
+hsa-mir-1289-1	0	0.000000	N
+hsa-mir-1289-2	0	0.000000	N
+hsa-mir-129-1	0	0.000000	N
+hsa-mir-129-2	1	0.736703	N
+hsa-mir-1290	0	0.000000	N
+hsa-mir-1291	5	3.683513	N
+hsa-mir-1292	1	0.736703	N
+hsa-mir-1293	1	0.736703	N
+hsa-mir-1294	0	0.000000	N
+hsa-mir-1295a	0	0.000000	N
+hsa-mir-1295b	0	0.000000	N
+hsa-mir-1296	4	2.946810	N
+hsa-mir-1297	0	0.000000	N
+hsa-mir-1298	0	0.000000	N
+hsa-mir-1299	0	0.000000	N
+hsa-mir-1301	24	17.680860	N
+hsa-mir-1302-1	0	0.000000	N
+hsa-mir-1302-10	0	0.000000	N
+hsa-mir-1302-11	0	0.000000	N
+hsa-mir-1302-2	0	0.000000	N
+hsa-mir-1302-3	0	0.000000	N
+hsa-mir-1302-4	0	0.000000	N
+hsa-mir-1302-5	0	0.000000	N
+hsa-mir-1302-6	0	0.000000	N
+hsa-mir-1302-7	0	0.000000	N
+hsa-mir-1302-8	0	0.000000	N
+hsa-mir-1302-9	0	0.000000	N
+hsa-mir-1303	0	0.000000	N
+hsa-mir-1304	1	0.736703	N
+hsa-mir-1305	0	0.000000	N
+hsa-mir-1306	11	8.103728	N
+hsa-mir-1307	1624	1196.404892	N
+hsa-mir-130a	78	57.462797	N
+hsa-mir-130b	39	28.731398	N
+hsa-mir-132	126	92.824517	N
+hsa-mir-1321	0	0.000000	N
+hsa-mir-1322	0	0.000000	N
+hsa-mir-1323	0	0.000000	N
+hsa-mir-1324	0	0.000000	N
+hsa-mir-133a-1	1	0.736703	N
+hsa-mir-133a-2	1	0.736703	N
+hsa-mir-133b	0	0.000000	N
+hsa-mir-134	1209	890.673346	N
+hsa-mir-1343	2	1.473405	N
+hsa-mir-135a-1	2	1.473405	N
+hsa-mir-135a-2	2	1.473405	N
+hsa-mir-135b	20	14.734050	N
+hsa-mir-136	28	20.627671	N
+hsa-mir-137	0	0.000000	N
+hsa-mir-138-1	0	0.000000	N
+hsa-mir-138-2	0	0.000000	N
+hsa-mir-139	74	54.515986	N
+hsa-mir-140	521	383.822013	N
+hsa-mir-141	2501	1842.493001	N
+hsa-mir-142	7044	5189.332548	N
+hsa-mir-143	48443	35688.080153	N
+hsa-mir-144	115	84.720790	N
+hsa-mir-145	1728	1273.021954	N
+hsa-mir-1468	15	11.050538	N
+hsa-mir-1469	0	0.000000	N
+hsa-mir-146a	598	440.548107	N
+hsa-mir-146b	1970	1451.303963	N
+hsa-mir-1470	0	0.000000	N
+hsa-mir-1471	0	0.000000	N
+hsa-mir-147a	0	0.000000	N
+hsa-mir-147b	1	0.736703	N
+hsa-mir-148a	80268	59133.637837	N
+hsa-mir-148b	247	181.965522	N
+hsa-mir-149	17	12.523943	N
+hsa-mir-150	3608	2658.022690	N
+hsa-mir-151a	2321	1709.886548	N
+hsa-mir-151b	0	0.000000	N
+hsa-mir-152	182	134.079859	N
+hsa-mir-153-1	1	0.736703	N
+hsa-mir-153-2	28	20.627671	N
+hsa-mir-1537	0	0.000000	N
+hsa-mir-1538	1	0.736703	N
+hsa-mir-1539	0	0.000000	N
+hsa-mir-154	7	5.156918	N
+hsa-mir-155	933	687.343451	N
+hsa-mir-1587	0	0.000000	N
+hsa-mir-15a	180	132.606454	N
+hsa-mir-15b	270	198.909680	N
+hsa-mir-16-1	737	542.949757	N
+hsa-mir-16-2	694	511.271549	N
+hsa-mir-17	927	682.923236	Y
+hsa-mir-181a-1	1998	1471.931634	N
+hsa-mir-181a-2	1886	1389.420952	N
+hsa-mir-181b-1	833	613.673199	N
+hsa-mir-181b-2	604	444.968322	N
+hsa-mir-181c	43	31.678208	N
+hsa-mir-181d	11	8.103728	N
+hsa-mir-182	34099	25120.819213	N
+hsa-mir-1825	0	0.000000	N
+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	27906	20558.420510	N
+hsa-mir-184	9	6.630323	N
+hsa-mir-185	117	86.194195	N
+hsa-mir-186	457	336.673051	N
+hsa-mir-187	17	12.523943	N
+hsa-mir-188	2	1.473405	N
+hsa-mir-18a	30	22.101076	Y
+hsa-mir-18b	2	1.473405	Y
+hsa-mir-1908	0	0.000000	N
+hsa-mir-1909	0	0.000000	N
+hsa-mir-190a	5	3.683513	N
+hsa-mir-190b	62	45.675556	N
+hsa-mir-191	2101	1547.811994	N
+hsa-mir-1910	0	0.000000	N
+hsa-mir-1911	0	0.000000	N
+hsa-mir-1912	0	0.000000	N
+hsa-mir-1913	0	0.000000	N
+hsa-mir-1914	0	0.000000	N
+hsa-mir-1915	0	0.000000	N
+hsa-mir-192	7125	5249.005452	Y
+hsa-mir-193a	406	299.101223	N
+hsa-mir-193b	212	156.180934	N
+hsa-mir-194-1	590	434.654487	N
+hsa-mir-194-2	673	495.800796	N
+hsa-mir-195	49	36.098423	N
+hsa-mir-196a-1	522	384.558715	N
+hsa-mir-196a-2	548	403.712981	N
+hsa-mir-196b	371	273.316635	N
+hsa-mir-197	376	277.000147	N
+hsa-mir-1972-1	0	0.000000	N
+hsa-mir-1972-2	0	0.000000	N
+hsa-mir-1973	0	0.000000	N
+hsa-mir-1976	6	4.420215	N
+hsa-mir-198	0	0.000000	N
+hsa-mir-199a-1	2385	1757.035509	Y
+hsa-mir-199a-2	4583	3376.307647	Y
+hsa-mir-199b	6538	4816.561073	Y
+hsa-mir-19a	53	39.045234	N
+hsa-mir-19b-1	102	75.143657	N
+hsa-mir-19b-2	75	55.252689	N
+hsa-mir-200a	2797	2060.556947	N
+hsa-mir-200b	862	635.037572	N
+hsa-mir-200c	19380	14277.294828	N
+hsa-mir-202	2	1.473405	N
+hsa-mir-203a	40717	29996.316487	N
+hsa-mir-203b	248	182.702225	N
+hsa-mir-204	4	2.946810	N
+hsa-mir-205	682	502.431118	N
+hsa-mir-2052	0	0.000000	N
+hsa-mir-2053	0	0.000000	N
+hsa-mir-2054	0	0.000000	N
+hsa-mir-206	0	0.000000	N
+hsa-mir-208a	0	0.000000	N
+hsa-mir-208b	0	0.000000	N
+hsa-mir-20a	319	235.008104	N
+hsa-mir-20b	142	104.611758	N
+hsa-mir-21	211015	155455.282157	N
+hsa-mir-210	589	433.917784	N
+hsa-mir-211	0	0.000000	N
+hsa-mir-2110	4	2.946810	N
+hsa-mir-2113	0	0.000000	N
+hsa-mir-2114	0	0.000000	N
+hsa-mir-2115	2	1.473405	N
+hsa-mir-2116	0	0.000000	N
+hsa-mir-2117	0	0.000000	N
+hsa-mir-212	4	2.946810	N
+hsa-mir-214	11	8.103728	N
+hsa-mir-215	56	41.255341	Y
+hsa-mir-216a	0	0.000000	N
+hsa-mir-216b	0	0.000000	N
+hsa-mir-217	14	10.313835	N
+hsa-mir-218-1	25	18.417563	N
+hsa-mir-218-2	22	16.207455	N
+hsa-mir-219a-1	4	2.946810	N
+hsa-mir-219a-2	0	0.000000	N
+hsa-mir-219b	0	0.000000	N
+hsa-mir-22	99261	73125.828790	N
+hsa-mir-221	300	221.010756	N
+hsa-mir-222	118	86.930897	N
+hsa-mir-223	284	209.223516	N
+hsa-mir-224	10	7.367025	N
+hsa-mir-2276	0	0.000000	N
+hsa-mir-2277	3	2.210108	N
+hsa-mir-2278	0	0.000000	N
+hsa-mir-2355	39	28.731398	N
+hsa-mir-2392	0	0.000000	N
+hsa-mir-23a	3638	2680.123766	Y
+hsa-mir-23b	881	649.034920	Y
+hsa-mir-23c	0	0.000000	N
+hsa-mir-24-1	447	329.306026	N
+hsa-mir-24-2	483	355.827317	N
+hsa-mir-2467	0	0.000000	N
+hsa-mir-25	29020	21379.107117	N
+hsa-mir-2681	0	0.000000	N
+hsa-mir-2682	0	0.000000	N
+hsa-mir-26a-1	1095	806.689259	N
+hsa-mir-26a-2	1061	781.641373	N
+hsa-mir-26b	487	358.774127	N
+hsa-mir-27a	561	413.290113	Y
+hsa-mir-27b	348	256.372477	Y
+hsa-mir-28	7581	5584.941801	N
+hsa-mir-2861	0	0.000000	N
+hsa-mir-2909	0	0.000000	N
+hsa-mir-296	0	0.000000	N
+hsa-mir-297	0	0.000000	N
+hsa-mir-298	0	0.000000	N
+hsa-mir-299	2	1.473405	N
+hsa-mir-29a	4410	3248.858111	N
+hsa-mir-29b-1	281	207.013408	N
+hsa-mir-29b-2	309	227.641079	N
+hsa-mir-29c	1323	974.657433	N
+hsa-mir-300	0	0.000000	N
+hsa-mir-301a	17	12.523943	N
+hsa-mir-301b	2	1.473405	N
+hsa-mir-302a	0	0.000000	N
+hsa-mir-302b	0	0.000000	N
+hsa-mir-302c	0	0.000000	N
+hsa-mir-302d	0	0.000000	N
+hsa-mir-302e	0	0.000000	N
+hsa-mir-302f	0	0.000000	N
+hsa-mir-3064	1	0.736703	N
+hsa-mir-3065	28	20.627671	N
+hsa-mir-3074	20	14.734050	N
+hsa-mir-30a	77298	56945.631354	Y
+hsa-mir-30b	337	248.268749	Y
+hsa-mir-30c-1	646	475.909828	Y
+hsa-mir-30c-2	756	556.947105	N
+hsa-mir-30d	6119	4507.882717	N
+hsa-mir-30e	18986	13987.034036	Y
+hsa-mir-31	7	5.156918	N
+hsa-mir-3115	0	0.000000	N
+hsa-mir-3116-1	0	0.000000	N
+hsa-mir-3116-2	0	0.000000	N
+hsa-mir-3117	1	0.736703	N
+hsa-mir-3118-1	0	0.000000	N
+hsa-mir-3118-2	0	0.000000	N
+hsa-mir-3118-3	0	0.000000	N
+hsa-mir-3118-4	0	0.000000	N
+hsa-mir-3119-1	0	0.000000	N
+hsa-mir-3119-2	0	0.000000	N
+hsa-mir-3120	0	0.000000	N
+hsa-mir-3121	0	0.000000	N
+hsa-mir-3122	0	0.000000	N
+hsa-mir-3123	0	0.000000	N
+hsa-mir-3124	0	0.000000	N
+hsa-mir-3125	0	0.000000	N
+hsa-mir-3126	0	0.000000	N
+hsa-mir-3127	36	26.521291	N
+hsa-mir-3128	0	0.000000	N
+hsa-mir-3129	0	0.000000	N
+hsa-mir-3130-1	5	3.683513	N
+hsa-mir-3130-2	2	1.473405	N
+hsa-mir-3131	0	0.000000	N
+hsa-mir-3132	0	0.000000	N
+hsa-mir-3133	0	0.000000	N
+hsa-mir-3134	0	0.000000	N
+hsa-mir-3135a	0	0.000000	N
+hsa-mir-3135b	0	0.000000	N
+hsa-mir-3136	5	3.683513	N
+hsa-mir-3137	0	0.000000	N
+hsa-mir-3138	0	0.000000	N
+hsa-mir-3139	0	0.000000	N
+hsa-mir-3140	1	0.736703	N
+hsa-mir-3141	0	0.000000	N
+hsa-mir-3142	0	0.000000	N
+hsa-mir-3143	0	0.000000	N
+hsa-mir-3144	0	0.000000	N
+hsa-mir-3145	0	0.000000	N
+hsa-mir-3146	0	0.000000	N
+hsa-mir-3147	0	0.000000	N
+hsa-mir-3148	0	0.000000	N
+hsa-mir-3149	0	0.000000	N
+hsa-mir-3150a	0	0.000000	N
+hsa-mir-3150b	4	2.946810	N
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+hsa-mir-330	26	19.154266	N
+hsa-mir-331	48	35.361721	N
+hsa-mir-335	157	115.662296	N
+hsa-mir-337	29	21.364373	N
+hsa-mir-338	167	123.029321	N
+hsa-mir-339	33	24.311183	N
+hsa-mir-33a	14	10.313835	N
+hsa-mir-33b	27	19.890968	N
+hsa-mir-340	17	12.523943	N
+hsa-mir-342	770	567.260940	N
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+hsa-mir-346	0	0.000000	N
+hsa-mir-34a	90	66.303227	N
+hsa-mir-34b	1	0.736703	N
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+hsa-mir-361	362	266.686312	N
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+hsa-mir-3611	0	0.000000	N
+hsa-mir-3612	0	0.000000	N
+hsa-mir-3613	32	23.574481	N
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+hsa-mir-3652	2	1.473405	N
+hsa-mir-3653	55	40.518639	N
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+hsa-mir-3659	0	0.000000	N
+hsa-mir-365a	143	105.348460	Y
+hsa-mir-365b	140	103.138353	Y
+hsa-mir-3660	0	0.000000	N
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+hsa-mir-3663	0	0.000000	N
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+hsa-mir-375	4575	3370.414027	N
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+hsa-mir-382	49	36.098423	N
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+hsa-mir-3913-2	2	1.473405	N
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+hsa-mir-412	2	1.473405	N
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+hsa-mir-4424	1	0.736703	N
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+hsa-mir-4433b	1	0.736703	N
+hsa-mir-4434	0	0.000000	N
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+hsa-mir-4435-2	2	1.473405	N
+hsa-mir-4436a	0	0.000000	N
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+hsa-mir-4441	0	0.000000	N
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+hsa-mir-4443	1	0.736703	N
+hsa-mir-4444-1	1	0.736703	N
+hsa-mir-4444-2	1	0.736703	N
+hsa-mir-4445	0	0.000000	N
+hsa-mir-4446	2	1.473405	N
+hsa-mir-4447	0	0.000000	N
+hsa-mir-4448	0	0.000000	N
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+hsa-mir-4450	0	0.000000	N
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+hsa-mir-4462	0	0.000000	N
+hsa-mir-4463	0	0.000000	N
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+hsa-mir-4472-1	0	0.000000	N
+hsa-mir-4472-2	0	0.000000	N
+hsa-mir-4473	3	2.210108	N
+hsa-mir-4474	0	0.000000	N
+hsa-mir-4475	0	0.000000	N
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+hsa-mir-4482	0	0.000000	N
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+hsa-mir-449a	35	25.784588	N
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+hsa-mir-450a-2	10	7.367025	N
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+hsa-mir-4523	1	0.736703	N
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+hsa-mir-4660	2	1.473405	N
+hsa-mir-4661	7	5.156918	N
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+hsa-mir-4673	0	0.000000	N
+hsa-mir-4674	1	0.736703	N
+hsa-mir-4675	1	0.736703	N
+hsa-mir-4676	2	1.473405	N
+hsa-mir-4677	17	12.523943	N
+hsa-mir-4678	0	0.000000	N
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+hsa-mir-4723	0	0.000000	N
+hsa-mir-4724	1	0.736703	N
+hsa-mir-4725	2	1.473405	N
+hsa-mir-4726	2	1.473405	N
+hsa-mir-4727	1	0.736703	N
+hsa-mir-4728	1	0.736703	N
+hsa-mir-4729	0	0.000000	N
+hsa-mir-4730	0	0.000000	N
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+hsa-mir-4733	0	0.000000	N
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+hsa-mir-4735	0	0.000000	N
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+hsa-mir-4739	0	0.000000	N
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+hsa-mir-4741	0	0.000000	N
+hsa-mir-4742	4	2.946810	N
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+hsa-mir-4744	0	0.000000	N
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+hsa-mir-4746	12	8.840430	N
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+hsa-mir-4767	1	0.736703	N
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+hsa-mir-527	0	0.000000	N
+hsa-mir-532	1007	741.859437	N
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+hsa-mir-544a	0	0.000000	N
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+hsa-mir-548ay	0	0.000000	N
+hsa-mir-548az	0	0.000000	N
+hsa-mir-548b	0	0.000000	N
+hsa-mir-548ba	2	1.473405	N
+hsa-mir-548bb	0	0.000000	N
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+hsa-mir-548f-1	0	0.000000	N
+hsa-mir-548f-2	0	0.000000	N
+hsa-mir-548f-3	0	0.000000	N
+hsa-mir-548f-4	0	0.000000	N
+hsa-mir-548f-5	0	0.000000	N
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+hsa-mir-548h-1	0	0.000000	N
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+hsa-mir-548h-3	0	0.000000	N
+hsa-mir-548h-4	0	0.000000	N
+hsa-mir-548h-5	0	0.000000	N
+hsa-mir-548i-1	0	0.000000	N
+hsa-mir-548i-2	0	0.000000	N
+hsa-mir-548i-3	0	0.000000	N
+hsa-mir-548i-4	0	0.000000	N
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+hsa-mir-6892	1	0.736703	N
+hsa-mir-6893	0	0.000000	N
+hsa-mir-6894	0	0.000000	N
+hsa-mir-6895	0	0.000000	N
+hsa-mir-7-1	88	64.829822	N
+hsa-mir-7-2	0	0.000000	N
+hsa-mir-7-3	4	2.946810	N
+hsa-mir-708	47	34.625018	N
+hsa-mir-7106	0	0.000000	N
+hsa-mir-7107	0	0.000000	N
+hsa-mir-7108	0	0.000000	N
+hsa-mir-7109	0	0.000000	N
+hsa-mir-711	0	0.000000	N
+hsa-mir-7110	0	0.000000	N
+hsa-mir-7111	0	0.000000	N
+hsa-mir-7112	1	0.736703	N
+hsa-mir-7113	0	0.000000	N
+hsa-mir-7114	0	0.000000	N
+hsa-mir-7150	0	0.000000	N
+hsa-mir-7151	0	0.000000	N
+hsa-mir-7152	0	0.000000	N
+hsa-mir-7153	0	0.000000	N
+hsa-mir-7154	0	0.000000	N
+hsa-mir-7155	0	0.000000	N
+hsa-mir-7156	3	2.210108	N
+hsa-mir-7157	0	0.000000	N
+hsa-mir-7158	0	0.000000	N
+hsa-mir-7159	0	0.000000	N
+hsa-mir-7160	0	0.000000	N
+hsa-mir-7161	0	0.000000	N
+hsa-mir-7162	0	0.000000	N
+hsa-mir-718	0	0.000000	N
+hsa-mir-744	53	39.045234	N
+hsa-mir-7515	0	0.000000	N
+hsa-mir-758	11	8.103728	N
+hsa-mir-759	0	0.000000	N
+hsa-mir-760	5	3.683513	N
+hsa-mir-761	0	0.000000	N
+hsa-mir-762	0	0.000000	N
+hsa-mir-764	0	0.000000	N
+hsa-mir-7641-1	0	0.000000	N
+hsa-mir-7641-2	1	0.736703	N
+hsa-mir-765	1	0.736703	N
+hsa-mir-766	11	8.103728	N
+hsa-mir-767	10	7.367025	N
+hsa-mir-769	47	34.625018	N
+hsa-mir-770	0	0.000000	N
+hsa-mir-7702	13	9.577133	N
+hsa-mir-7703	0	0.000000	N
+hsa-mir-7704	0	0.000000	N
+hsa-mir-7705	3	2.210108	N
+hsa-mir-7706	4	2.946810	N
+hsa-mir-7843	0	0.000000	N
+hsa-mir-7844	0	0.000000	N
+hsa-mir-7845	0	0.000000	N
+hsa-mir-7846	2	1.473405	N
+hsa-mir-7847	0	0.000000	N
+hsa-mir-7848	0	0.000000	N
+hsa-mir-7849	0	0.000000	N
+hsa-mir-7850	0	0.000000	N
+hsa-mir-7851	0	0.000000	N
+hsa-mir-7852	0	0.000000	N
+hsa-mir-7853	0	0.000000	N
+hsa-mir-7854	0	0.000000	N
+hsa-mir-7855	0	0.000000	N
+hsa-mir-7856	0	0.000000	N
+hsa-mir-7973-1	0	0.000000	N
+hsa-mir-7973-2	0	0.000000	N
+hsa-mir-7974	0	0.000000	N
+hsa-mir-7975	0	0.000000	N
+hsa-mir-7976	0	0.000000	N
+hsa-mir-7977	0	0.000000	N
+hsa-mir-7978	0	0.000000	N
+hsa-mir-802	0	0.000000	N
+hsa-mir-8052	0	0.000000	N
+hsa-mir-8053	0	0.000000	N
+hsa-mir-8054	0	0.000000	N
+hsa-mir-8055	0	0.000000	N
+hsa-mir-8056	0	0.000000	N
+hsa-mir-8057	0	0.000000	N
+hsa-mir-8058	0	0.000000	N
+hsa-mir-8059	0	0.000000	N
+hsa-mir-8060	0	0.000000	N
+hsa-mir-8061	0	0.000000	N
+hsa-mir-8062	0	0.000000	N
+hsa-mir-8063	0	0.000000	N
+hsa-mir-8064	0	0.000000	N
+hsa-mir-8065	0	0.000000	N
+hsa-mir-8066	0	0.000000	N
+hsa-mir-8067	0	0.000000	N
+hsa-mir-8068	0	0.000000	N
+hsa-mir-8069-1	0	0.000000	N
+hsa-mir-8069-2	0	0.000000	N
+hsa-mir-8070	0	0.000000	N
+hsa-mir-8071-1	0	0.000000	N
+hsa-mir-8071-2	0	0.000000	N
+hsa-mir-8072	0	0.000000	N
+hsa-mir-8073	0	0.000000	N
+hsa-mir-8074	0	0.000000	N
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+hsa-mir-8076	0	0.000000	N
+hsa-mir-8077	0	0.000000	N
+hsa-mir-8078	0	0.000000	N
+hsa-mir-8079	0	0.000000	N
+hsa-mir-8080	0	0.000000	N
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+hsa-mir-8082	0	0.000000	N
+hsa-mir-8083	0	0.000000	N
+hsa-mir-8084	0	0.000000	N
+hsa-mir-8085	0	0.000000	N
+hsa-mir-8086	0	0.000000	N
+hsa-mir-8087	0	0.000000	N
+hsa-mir-8088	0	0.000000	N
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+hsa-mir-8485	0	0.000000	N
+hsa-mir-873	0	0.000000	N
+hsa-mir-874	16	11.787240	N
+hsa-mir-875	0	0.000000	N
+hsa-mir-876	0	0.000000	N
+hsa-mir-877	8	5.893620	N
+hsa-mir-885	2	1.473405	N
+hsa-mir-887	5	3.683513	N
+hsa-mir-888	0	0.000000	N
+hsa-mir-889	20	14.734050	N
+hsa-mir-890	0	0.000000	N
+hsa-mir-891a	5	3.683513	N
+hsa-mir-891b	0	0.000000	N
+hsa-mir-892a	0	0.000000	N
+hsa-mir-892b	0	0.000000	N
+hsa-mir-892c	0	0.000000	N
+hsa-mir-9-1	105	77.353765	N
+hsa-mir-9-2	92	67.776632	N
+hsa-mir-9-3	97	71.460144	N
+hsa-mir-920	0	0.000000	N
+hsa-mir-921	0	0.000000	N
+hsa-mir-922	0	0.000000	N
+hsa-mir-924	0	0.000000	N
+hsa-mir-92a-1	8722	6425.519375	N
+hsa-mir-92a-2	8202	6042.434065	N
+hsa-mir-92b	176	129.659643	N
+hsa-mir-93	15084	11112.420804	N
+hsa-mir-933	0	0.000000	N
+hsa-mir-934	1	0.736703	N
+hsa-mir-935	1	0.736703	N
+hsa-mir-936	0	0.000000	N
+hsa-mir-937	1	0.736703	N
+hsa-mir-938	0	0.000000	N
+hsa-mir-939	0	0.000000	N
+hsa-mir-940	4	2.946810	N
+hsa-mir-941-1	0	0.000000	N
+hsa-mir-941-2	0	0.000000	N
+hsa-mir-941-3	0	0.000000	N
+hsa-mir-941-4	0	0.000000	N
+hsa-mir-941-5	0	0.000000	N
+hsa-mir-942	20	14.734050	N
+hsa-mir-943	1	0.736703	N
+hsa-mir-944	5	3.683513	N
+hsa-mir-95	4	2.946810	N
+hsa-mir-9500	0	0.000000	N
+hsa-mir-96	29	21.364373	N
+hsa-mir-98	149	109.768675	N
+hsa-mir-99a	619	456.018860	Y
+hsa-mir-99b	135221	99617.651392	N

data/gdc_data_organized/0a229f95-0ea1-4d63-953e-74f5ec2f3028/BITES_p_TCGAb61_SNP_S_GenomeWideSNP_6_E03_697050.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,651 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
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+                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A13B</bio:plate_id>
+                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">20</bio:center_id>
+                        <bio:shipment_portion_day_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">22</bio:shipment_portion_day_of_shipment>
+                        <bio:shipment_portion_month_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">3</bio:shipment_portion_month_of_shipment>
+                        <bio:shipment_portion_year_of_shipment cde="" xsd_ver="2.4" procurement_status="Completed" owner="">2011</bio:shipment_portion_year_of_shipment>
+                        <bio:shipment_portion_bcr_aliquot_barcode cde="" xsd_ver="2.4" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-21-A13B-20</bio:shipment_portion_bcr_aliquot_barcode>
+                        <bio:bcr_shipment_portion_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">ac0bdea2-ebe1-454a-8425-960820b9a1ad</bio:bcr_shipment_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                    </bio:shipment_portion>
+                    <bio:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">11</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">22</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Completed" owner="">30.00</bio:weight>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2897211e-218f-4dbd-a131-9909b040a202</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.85</bio:a260_a280_ratio>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">27f50274-4e8f-4841-8170-1ed7e641face</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A058</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A058-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">69b469ed-401a-43ae-ab70-e3e650df2644</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.01</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100476389</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A059</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A059-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ce2e1bd2-6d7a-45d2-92ca-e2550974cfc8</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100479009</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A060</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A060-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a3e91783-1371-4ac2-a287-1fcc80b74d07</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.95</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100477985</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A074</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A074-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">a6f10b39-2ff2-48a4-a5b4-8f5f49860ed4</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.07</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.40</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099036779</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A075</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A075-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b21911ad-cf03-444b-a13c-b14000be574c</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.07</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">0.93</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.34</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099027202</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A10P</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">05</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">20</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">12</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A10P-05</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">deb12955-614e-4735-bafd-20d4ebf1a384</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">4.01</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">C</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100477261</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A892</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">36</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">23</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">02</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2022</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11D-A892-36</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6D9DFD60-112C-4AF9-9E99-608DBD9A4ADB</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.15</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">7.50</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">50.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">C</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2112365908</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">aDNA Preparation Type</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">R</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">RNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.13</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.93</bio:a260_a280_ratio>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11R</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f097e051-30b0-4c80-baa5-fcaae77e85b3</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A056</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">07</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11R-A056-07</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0bef9bfc-43d3-4ac9-a60f-9b65623f7e37</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.13</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">3.47</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">26.70</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100470716</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A057</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">13</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11R-A057-13</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">ffde17b2-e2e0-434e-b694-d9dbe7a67b4d</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.13</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.60</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100492112</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">mirVana (Allprep DNA) RNA</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:rna>
+                                    <bio:ratio_28s_18s cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.60</bio:ratio_28s_18s>
+                                    <bio:rinvalue cde="" xsd_ver="1.8" procurement_status="Completed" owner="">8.90</bio:rinvalue>
+                                </bio:rna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5407C1BB-6AD3-46A2-9687-54E393968008</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A070</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11W-A070-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f1956f09-3263-4f49-a443-547872b84b1f</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099069064</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A071</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11W-A071-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9d3ad8d0-ddd3-44d2-ba0e-0b283a4fbf32</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099036792</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:subportion_sequence>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">X</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G X (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11X</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">506F3D62-5530-492D-9003-B5FDF043CE67</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A072</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11X-A072-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5866ad0b-a3ea-46b4-81a8-bd53ca121a42</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100476246</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A073</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-11X-A073-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">302b14cc-753e-43c2-bee5-3c39df92b80c</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">5</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099064633</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G X</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                        </bio:analytes>
+                        <bio:slides>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">BOTTOM</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">75</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">75</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">4</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">21</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-01-BSA</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4d037bfe-f392-445e-aedd-68ee8b7e0e53</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-01-BSA.4d037bfe-f392-445e-aedd-68ee8b7e0e53.svs</shared:image_file_name>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                            <bio:slide>
+                                <admin:additional_studies/>
+                                <bio:section_location cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TOP</bio:section_location>
+                                <bio:number_proliferating_cells cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_tumor_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_cells>
+                                <bio:percent_tumor_nuclei cde="2841225" xsd_ver="1.8" procurement_status="Completed" owner="">85</bio:percent_tumor_nuclei>
+                                <bio:percent_normal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2</bio:percent_normal_cells>
+                                <bio:percent_necrosis cde="2841237" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_necrosis>
+                                <bio:percent_stromal_cells cde="" xsd_ver="1.8" procurement_status="Completed" owner="">13</bio:percent_stromal_cells>
+                                <bio:percent_inflam_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_lymphocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1</bio:percent_lymphocyte_infiltration>
+                                <bio:percent_monocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_monocyte_infiltration>
+                                <bio:percent_granulocyte_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:percent_neutrophil_infiltration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0</bio:percent_neutrophil_infiltration>
+                                <bio:percent_eosinophil_infiltration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <shared:bcr_slide_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-01-TSA</shared:bcr_slide_barcode>
+                                <shared:bcr_slide_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">d855990d-c9ee-42d4-8d7a-8345e65da160</shared:bcr_slide_uuid>
+                                <shared:image_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AO-A0JD-01A-01-TSA.d855990d-c9ee-42d4-8d7a-8345e65da160.svs</shared:image_file_name>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                            </bio:slide>
+                        </bio:slides>
+                        <bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                    </bio:portion>
+                </bio:portions>
+                <bio:tumor_pathology/>
+                <bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                <bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
+                <shared:days_to_sample_procurement cde="3288495" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">E8A43FF3-3D98-45EE-9567-6EED4DA38274</bio:pathology_report_uuid>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Completed" owner="">TCGA-AO-A0JD.E8A43FF3-3D98-45EE-9567-6EED4DA38274.pdf</bio:pathology_report_file_name>
+                <bio:diagnostic_slides>
+                    <admin:additional_studies/>
+                    <bio:ffpe_slide_uuid cde="" xsd_ver="2.4" procurement_status="Completed" owner="">52E3DCE8-32E3-45C0-AB54-7FA0A2F3F722</bio:ffpe_slide_uuid>
+                </bio:diagnostic_slides>
+            </bio:sample>
+            <bio:sample>
+                <admin:additional_studies/>
+                <bio:specimen_fraction_ordinal cde="" xsd_ver="2.7" procurement_status="Not Available" owner=""/>
+                <bio:sample_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">10</bio:sample_type_id>
+                <bio:vial_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A</bio:vial_number>
+                <bio:biospecimen_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:sample_type cde="" xsd_ver="2.4" procurement_status="Completed" owner="">Blood Derived Normal</bio:sample_type>
+                <bio:longest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:intermediate_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:shortest_dimension cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:initial_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:current_weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:freezing_method cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:oct_embedded cde="" xsd_ver="1.8" procurement_status="Completed" owner="">false</bio:oct_embedded>
+                <bio:preservation_method cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tissue_type cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:composition cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:tumor_descriptor cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:days_to_collection precision="day" procurement_status="Completed" cde="" xsd_ver="2.6" owner="">1863</bio:days_to_collection>
+                <bio:time_between_clamping_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:time_between_excision_and_freezing cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                <bio:bcr_sample_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A</bio:bcr_sample_barcode>
+                <bio:bcr_sample_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">bbdc812c-c117-4036-91d3-f9aa5f1fb1e2</bio:bcr_sample_uuid>
+                <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                <bio:portions>
+                    <bio:portion>
+                        <admin:additional_studies/>
+                        <bio:portion_number cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:portion_number>
+                        <bio:portion_sequence cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1</bio:portion_sequence>
+                        <bio:day_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">03</bio:day_of_creation>
+                        <bio:month_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">06</bio:month_of_creation>
+                        <bio:year_of_creation cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_creation>
+                        <bio:weight cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                        <bio:bcr_portion_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01</bio:bcr_portion_barcode>
+                        <bio:bcr_portion_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">95a60636-5acc-4ef0-8866-508f395a36a7</bio:bcr_portion_uuid>
+                        <bio:is_ffpe cde="4170557" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_ffpe>
+                        <bio:analytes>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">D</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Completed" owner="">1.93</bio:a260_a280_ratio>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01D</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4ee8f988-3d74-43d5-8cf7-0576c1631e44</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A059</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">01</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01D-A059-01</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">06f860c9-8baa-4c7f-b3ca-1b59f73e288d</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.13</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">6.67</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100489781</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A060</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">02</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">11</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01D-A060-02</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">4c9f7051-7c8e-4f57-b063-b8be335a2cd3</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">2.21</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0100476364</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A074</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01D-A074-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">d0b50882-d26e-46f1-9f8e-4ecc931a5ae2</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.09</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.80</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">20.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099030843</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A075</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01D-A075-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">f59356d2-c954-46d3-b4e6-8065b0a8c6e2</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.09</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">1.20</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">13.34</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099027327</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A892</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">36</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">23</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">02</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2022</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01D-A892-36</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D3245B41-875E-4A51-9E52-CBB7101FA386</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.17</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">8.50</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">50.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">D</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">9</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2112365909</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Pre-extracted DNA received by TSS</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Completed" owner="">UV Spec</bio:spectrophotometer_method>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">W</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01W</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">94AB6A42-78D3-43CA-8D8C-A35684F5022C</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A070</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01W-A070-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">2478c7b0-bda5-4d4c-aca3-608472147859</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099031059</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A071</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01W-A071-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">b3d6fcbb-a58c-488b-81d0-3af21736e84f</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099035322</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                            <bio:analyte>
+                                <admin:additional_studies/>
+                                <bio:subportion_sequence cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                                <bio:analyte_type_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">X</bio:analyte_type_id>
+                                <bio:analyte_type cde="" xsd_ver="1.10" procurement_status="Completed" owner="">Repli-G X (Qiagen) DNA</bio:analyte_type>
+                                <bio:concentration cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:a260_a280_ratio cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:gel_image_file cde="" xsd_ver="1.8" procurement_status="Completed" owner="">https://sharedoc.nchri.org/tcga-bcr/default.aspx</bio:gel_image_file>
+                                <bio:well_number cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                <bio:bcr_analyte_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01X</bio:bcr_analyte_barcode>
+                                <bio:bcr_analyte_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">93D46ECA-C787-4237-BC7A-E64631E7E446</bio:bcr_analyte_uuid>
+                                <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                <bio:aliquots>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A072</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">08</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01X-A072-08</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">59b4f38f-def6-45ea-a63b-7c47f56ec806</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099051530</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                    <bio:aliquot>
+                                        <admin:additional_studies/>
+                                        <bio:plate_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">A073</bio:plate_id>
+                                        <bio:center_id cde="" xsd_ver="2.4" procurement_status="Completed" owner="">09</bio:center_id>
+                                        <bio:day_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">08</bio:day_of_shipment>
+                                        <bio:month_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">09</bio:month_of_shipment>
+                                        <bio:year_of_shipment cde="" xsd_ver="1.8" procurement_status="Completed" owner="">2010</bio:year_of_shipment>
+                                        <bio:bcr_aliquot_barcode cde="" xsd_ver="1.8" procurement_status="Completed" owner="">TCGA-AO-A0JD-10A-01X-A073-09</bio:bcr_aliquot_barcode>
+                                        <bio:bcr_aliquot_uuid cde="" xsd_ver="2.3" procurement_status="Completed" owner="">6964b8fd-9a04-49c8-a5a8-5082172a90bc</bio:bcr_aliquot_uuid>
+                                        <bio:concentration cde="" xsd_ver="1.8" procurement_status="Completed" owner="">0.50</bio:concentration>
+                                        <bio:quantity units="ug" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">40.00</bio:quantity>
+                                        <bio:volume units="ul" cde="" xsd_ver="2.6" procurement_status="Completed" owner="">80.00</bio:volume>
+                                        <bio:plate_row cde="" xsd_ver="2.3" procurement_status="Completed" owner="">F</bio:plate_row>
+                                        <bio:plate_column cde="" xsd_ver="2.3" procurement_status="Completed" owner="">11</bio:plate_column>
+                                        <bio:biospecimen_barcode_bottom cde="" xsd_ver="2.3" procurement_status="Completed" owner="">0099050750</bio:biospecimen_barcode_bottom>
+                                        <bio:source_center cde="" xsd_ver="2.4" procurement_status="Completed" owner="">23</bio:source_center>
+                                        <bio:is_derived_from_ffpe cde="4170571" xsd_ver="2.6" procurement_status="Completed" owner="">NO</bio:is_derived_from_ffpe>
+                                    </bio:aliquot>
+                                </bio:aliquots>
+                                <bio:protocols>
+                                    <bio:protocol>
+                                        <bio:experimental_protocol_type cde="" xsd_ver="1.8" procurement_status="Completed" owner="">Repli-G X</bio:experimental_protocol_type>
+                                        <bio:protocol_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                        <bio:protocol_file_name cde="" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                                    </bio:protocol>
+                                </bio:protocols>
+                                <bio:dna>
+                                    <bio:normal_tumor_genotype_match cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:normal_tumor_genotype_match>
+                                    <bio:pcr_amplification_successful cde="" xsd_ver="1.8" procurement_status="Completed" owner="">YES</bio:pcr_amplification_successful>
+                                </bio:dna>
+                                <bio:spectrophotometer_method cde="" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                            </bio:analyte>
+                        </bio:analytes>
+                        <bio:slides/>
+                        <bio:LCE cde="3251491" xsd_ver="1.8" procurement_status="Not Available" owner=""/>
+                    </bio:portion>
+                </bio:portions>
+                <bio:tumor_pathology/>
+                <bio:method_of_sample_procurement cde="3103514" xsd_ver="2.3" procurement_status="Not Available" owner=""/>
+                <bio_shared:other_method_of_sample_procurement cde="2006730" xsd_ver="2.5" procurement_status="Not Available" owner=""/>
+                <shared:days_to_sample_procurement cde="3288495" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_uuid cde="" xsd_ver="2.4" procurement_status="Not Available" owner=""/>
+                <bio:pathology_report_file_name cde="" xsd_ver="2.6" procurement_status="Not Available" owner=""/>
+                <bio:diagnostic_slides>
+                    <admin:additional_studies/>
+                </bio:diagnostic_slides>
+            </bio:sample>
+        </bio:samples>
+    </bio:patient>
+</bio:tcga_bcr>

data/gdc_data_organized/0cf0d67c-2f7f-42a6-94f3-407d0ec46c88/215e19b1-2444-4e32-8bc3-182d623c7352.wxs.aliquot_ensemble_masked.maf.gz

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data/gdc_data_organized/0cf0d67c-2f7f-42a6-94f3-407d0ec46c88/TCGA-AC-A4ZE-01A-21-A43F-20_RPPA_data.tsv

@@ -0,0 +1,488 @@
+AGID	lab_id	catalog_number	set_id	peptide_target	protein_expression
+AGID00100	882	sc-628	Old	1433BETA	0.032246
+AGID00111	913	sc-23957	Old	1433EPSILON	0.25714
+AGID00101	883	sc-1019	Old	1433ZETA	0.14394
+AGID00001	2	9452	Old	4EBP1	0.012437
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+AGID00003	6	9459	Old	4EBP1_pT37T46	-0.90805
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+AGID00120	985	4937	Old	53BP1	0.085068
+AGID00004	13	3661	Old	ACC_pS79	0.26399
+AGID00005	14	1768-1/ab45174	Old	ACC1	0.2059
+AGID00408	2372	3658	Set163	AceCS1	0.271229481872545
+AGID00473	1182	5335	Old	ACETYLATUBULINLYS40	0.37814
+AGID00404	2367	9189	Set163	ACSL1	-0.423210049421394
+AGID02144	2450	PA5-27081	Old	ACVRL1	0.036495
+AGID00186	1198	ab88574	Old	ADAR1	-0.068095
+AGID00146	1084	4691	Old	AKT	0.092236
+AGID00028	230	9271	Old	AKT_pS473	-0.54795
+AGID00170	1154	2965	Old	AKT_pT308	-0.67985
+AGID00316	1800	3063	Set163	Akt2	-0.3555250080665
+AGID00347	2009	8599	Set163	Akt2_pS474	-0.00931057032142434
+AGID02215	2577	ab195377	Set163	ALKBH5	0.76877478014239
+AGID00498	924	CA1030	Old	ALPHACATENIN	NA
+AGID00287	1630	ABC80	Set163	Ambra1_pS52	-0.0477358523195977
+AGID00236	1351	ab129081	Set163	AMPK-a2_pS345	0.0435048971109684
+AGID00006	39	2532	Old	AMPKALPHA	-0.18227
+AGID00007	40	2535	Old	AMPKALPHA_pT172	0.57095
+AGID00193	1208	610066	Old	ANNEXIN1	-0.44884
+AGID00166	1142	610668	Old	ANNEXINVII	0.31811
+AGID00371	756	1852-1/ab52615	Old	AR	0.97812
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+AGID00264	1560	HPA029318	Old	ASNS	-0.82015
+AGID00276	1612	3415	Set163	Atg3	0.140099927011603
+AGID00309	1775	13507	Set163	Atg4B	0.0461694733468368
+AGID00310	1776	12994	Set163	Atg5	-0.196110100991542
+AGID00277	1613	8558	Set163	Atg7	0.228169990087995
+AGID00242	1363	2873	Old	ATM	-0.16054
+AGID02142	2447	13050	Set163	ATM_pS1981	-0.0553651536274022
+AGID00217	1289	ab14748	Set163	ATP5A	-0.235180653291118
+AGID02145	2451	PA5-43776	Set163	ATP5H	-0.0287450335396588
+AGID02150	2456	13934	Set163	ATR	-0.33155304485479
+AGID00315	1795	ab178407	Set163	ATR_pS428	0.0846937376147309
+AGID00268	1569	ab97508	Set163	ATRX	0.281717352318022
+AGID00391	2332	14475	Set163	Aurora-A	-0.107340009912005
+AGID00392	2333	2914	Set163	Aurora-ABC_pT288_pT232_pT198	0
+AGID02195	2512	MA5-27890	Set163	Aurora-B	0.311773684103801
+AGID00215	1271	8661	Old	AXL	NA
+AGID02143	2449	8457	Set163	b-Actin	-0.151140275664616
+AGID00179	1170	9565	Set163	b-Catenin_pT41_S45	-0.099635004843366
+AGID00301	1725	14058	Set163	B7-H3	-0.176440924519511
+AGID00302	1726	14572	Set163	B7-H4	0.0580946553759135
+AGID00008	63	9291	Old	BAD_pS112	0.34357
+AGID00009	71	1542-1/ab32371	Old	BAK	-0.64369
+AGID00192	1207	sc-28383	Old	BAP1C4	-0.052994
+AGID00010	73	2772	Old	BAX	-0.27725
+AGID00433	80	M0887	Old	BCL2	1.0961
+AGID00219	1299	PAB8528	Old	BCL2A1	0.16838
+AGID00012	84	1018-1	Old	BCLXL	-0.23365
+AGID00377	87	sc-10086	Old	BECLIN	0.15371
+AGID00011	75	9562	Old	BETACATENIN	-2.3156
+AGID00013	88	1008-1/ab32060	Old	BID	-0.2482
+AGID00180	90	1036-1/ab32158	Old	BIM	0.22199
+AGID00221	1311	610978	Set163	BiP-GRP78	0.0716644341233808
+AGID00373	2194	07-507	Set163	BMK1-Erk5_pT218_Y220	0.0260900237374941
+AGID00355	92	1647/ab33899	Old	BRAF	-0.45933
+AGID00014	94	2696	Old	BRAF_pS445	0.23991
+AGID00445	761	9012	Old	BRCA2	0.019977
+AGID00266	1567	13440	Old	BRD4	-0.12727
+AGID00168	1146	2865	Set163	c-Abl_pY412	0.000749258124700619
+AGID00278	1615	3130	Set163	c-IAP2	0.0301648813072132
+AGID00345	1990	5649	Old	CA9	NA
+AGID00265	1565	2862	Old	CABL	-0.02705
+AGID00429	2407	2679	Set163	Calnexin	-0.180880263395912
+AGID00176	1165	9496	Set163	Caspase-8-cleaved	-0.13492509176402
+AGID00623	111	9665	Old	CASPASE3	-0.06216
+AGID00015	109	9491	Old	CASPASE7CLEAVEDD198	-0.78826
+AGID00118	951	9746	Old	CASPASE8	0.045221
+AGID00537	935	551246	Old	CASPASE9	NA
+AGID00016	114	3238	Old	CAVEOLIN1	0.37684
+AGID00358	2100	ab76000	Set163	CD134	0.0209785525705429
+AGID00303	1737	826701	Set163	CD171	0.315709967560713
+AGID00410	125	1632-1/ab78237	Old	CD20	-0.055055
+AGID00220	1308	ab28340	Old	CD26	-0.125
+AGID00191	1206	610467	Set163	CD29	0.110389637830629
+AGID00017	127	M0823	Old	CD31	0.42454
+AGID00369	2174	ab108403	Set163	CD38	-0.160889999098909
+AGID00359	2104	ab133616	Set163	CD4	-0.619661267677867
+AGID00411	1398	3570	Set163	CD44	-0.477975131273407
+AGID00237	1352	M070101-2	Set163	CD45	-0.0619301752275998
+AGID00115	937	611016	Old	CD49B	0.018998
+AGID02171	2482	91882	Set163	CD86	-0.45783002058647
+AGID00329	1873	4688	Set163	cdc25C	0.170395001914819
+AGID00227	1332	4651	Set163	Cdc42	-0.091670228253354
+AGID00422	2396	3387	Set163	Cdc6	-0.109560124905118
+AGID00501	1007	9112	Old	CDK1	-0.069052
+AGID00293	1658	ab32384	Set163	CDK1_pT14	0.140679997366041
+AGID00314	1783	4539	Old	CDK1_pY15	0.15391
+AGID00423	2397	8064	Set163	CDT1	-0.268975456394048
+AGID02101	2348	15102	Set163	cGAS	0.392319994662767
+AGID00447	2410	13460	Set163	CHD1L	-0.14954183940389
+AGID00189	1203	2360	Old	CHK1	0.13107
+AGID00234	1348	ab79758	Old	CHK1_pS296	-0.30936
+AGID00107	903	2348	Old	CHK1_pS345	0.06753
+AGID00018	146	3440	Old	CHK2	0.11925
+AGID00019	147	2197	Old	CHK2_pT68	0.032787
+AGID00527	2078	4952	Old	CIAP	0.084399
+AGID00350	2018	3793	Set163	CIITA	-0.238900006376954
+AGID00434	155	9164	Old	CJUN_pS73	0.14776
+AGID00020	157	1522-1/ab32363	Old	CKIT	0.069219
+AGID00400	852	NB100-91714	Old	CLAUDIN7	0.059451
+AGID00466	726	3127	Old	CMET	0.32955
+AGID00079	727	3129	Old	CMET_pY1235	-0.13474
+AGID00167	161	9402	Old	CMYC	0.63048
+AGID00292	1656	11130-1-AP	Old	COG3	0.24849
+AGID00021	171	sc-20649	Old	COLLAGENVI	0.37323
+AGID00141	1069	459230	Old	COMPLEXIISUBUNIT30	NA
+AGID00267	1568	3512	Set163	Connexin-43	-2.29065027566462
+AGID00269	1571	6434	Set163	Coup-TFII	0.35262999133566
+AGID00150	1116	4850	Set163	Cox-IV	-0.674020662856547
+AGID00195	1218	4842	Set163	Cox2	-0.171170002633959
+AGID00188	803	05-739	Old	CRAF	-0.34364
+AGID00022	179	9427	Old	CRAF_pS338	-0.15864
+AGID00023	181	9197	Set163	Creb	-0.39726112719565
+AGID00393	2334	9198	Set163	CREB_pS133	0.789192127331399
+AGID00365	2155	4980	Set163	CSK	-0.119060044222789
+AGID00367	2160	9201	Set163	CtIP	-0.290315344624086
+AGID00536	2096	ab107198	Old	CTLA4	NA
+AGID00025	198	2936	Set163	Cyclin-D3	0.354539875094882
+AGID00024	192	1495-1/ab32053	Old	CYCLINB1	-0.40884
+AGID00382	194	sc-718	Old	CYCLIND1	0.071276
+AGID00437	199	sc-25303	Old	CYCLINE1	-0.55879
+AGID00449	202	1142-1	Old	CYCLINE2	-0.18975
+AGID00209	1257	ab110324	Set163	Cyclophilin-F	0.513809705412469
+AGID00247	1379	ab48389	Set163	D-a-Tubulin	0.193894985175315
+AGID00308	1770	GTX10524	Set163	DAPK1_pS308	-0.110380060650377
+AGID00304	1744	ab51601	Set163	DAPK2	0.152714768913407
+AGID00343	1980	6998	Set163	DDB-1	0.930049923753812
+AGID00427	2402	5583	Set163	DDR1	-0.161055777840961
+AGID00428	2403	SAB4504671	Set163	DDR1_pY513	0.185469969709468
+AGID00532	1273	Bast Lab	Old	DIRAS3	0.47674
+AGID00104	891	ab76008	Old	DJ1	0.35266
+AGID02146	2452	4658	Set163	DM-Histone-H3	-0.00745539484259059
+AGID00386	1397	ab32521	Set163	DM-K9-Histone-H3	0.118394959494212
+AGID00352	2030	14649	Set163	DNA-Ligase-IV	-0.141125260372058
+AGID00407	2371	13609	Set163	DNA_POLG	0.237029910029498
+AGID00399	2344	5032	Set163	DNMT1	0.329519857766203
+AGID00409	2373	5391	Set163	DRP1	-0.13530157781035
+AGID00253	1406	5149	Old	DUSP4	2.2598
+AGID00334	1936	ab76310	Set163	DUSP6	-0.459920341167015
+AGID00116	940	3218	Old	DVL3	-0.41605
+AGID00211	1261	sc-251	Old	E2F1	NA
+AGID00148	1099	3195	Old	ECADHERIN	-2.7145
+AGID00135	1060	2332	Old	EEF2	-0.59908
+AGID00136	1061	3692	Old	EEF2K	0.53707
+AGID00152	1120	2232	Old	EGFR	-0.42657
+AGID00450	217	2234	Old	EGFR_pY1068	0.22074
+AGID00026	221	1124-1/ab32578	Old	EGFR_pY1173	-0.14596
+AGID00078	722	9742	Old	EIF4E	0.10805
+AGID00328	1871	ab76256	Set163	eIF4E_pS209	-0.205170327512017
+AGID00154	1124	2498	Old	EIF4G	-0.67909
+AGID00027	228	9181	Set163	Elk1_pS383	-0.260485004843366
+AGID00235	1350	M061329-2	Set163	EMA	-1.69152043668268
+AGID00394	2337	3810	Set163	Enolase-1	-0.495785242592835
+AGID00395	2338	8171	Set163	Enolase-2	0.124155000701812
+AGID00196	1219	GTX629542	Old	ENY2	NA
+AGID00438	1849	A302-024A	Set163	EphA2	-0.210120006376954
+AGID00552	2422	6347	Set163	EphA2_pS897	0.14643999736604
+AGID00553	2423	12677	Set163	EphA2_pY588	0.0224714972615402
+AGID00075	693	556347	Old	EPPK1	0.18478
+AGID00335	238	RM-9101	Old	ERALPHA	4.1643
+AGID00029	241	1091-1/ab32396	Old	ERALPHA_pS118	0.34841
+AGID00240	247	MS-671	Old	ERCC1	0.1237
+AGID00239	1355	11331-1-AP	Old	ERCC5	0.16366
+AGID00484	249	sc-154	Old	ERK2	-0.18087
+AGID00372	2193	3552	Set163	Erk5	-0.29154
+AGID00405	2369	13826	Set163	ERRalpha	-0.179255131273407
+AGID00187	1200	A303-501A	Old	ETS1	-0.82568
+AGID00511	2492	2593	Set163	EVI1	0.0542343888955394
+AGID00485	1284	4905	Old	EZH2	NA
+AGID00030	252	1700-1/ab40794	Set163	FAK	-0.909950011228984
+AGID02151	2457	8556	Set163	FAK_pY397	0.226223384976338
+AGID00171	1156	3180	Old	FASN	0.72091
+AGID00356	2085	500-P18/10775-082	Set163	FGF-basic	-0.1949750080665
+AGID00031	262	1574-1/ab45688	Old	FIBRONECTIN	-0.52889
+AGID00339	1959	4403	Set163	FN14	-0.151215002244064
+AGID02152	2458	20459	Old	FOXM1	-0.25353
+AGID00378	269	9467	Old	FOXO3A	0.19688
+AGID02197	2515	orb6051	Old	FOXO3A_pS318S321	0.050179
+AGID02167	2475	PA5-64616	Set163	FRS2-alpha_pY196	0.0201000018714975
+AGID02213	2575	ab124892	Set163	FTO	0.155389996534264
+AGID02141	2446	12263	Old	G6PD	-0.032156
+AGID00117	943	3239	Old	GAB2	0.75659
+AGID00412	274	AM4300	Old	GAPDH	-0.93847
+AGID00086	764	558686	Old	GATA3	2.813
+AGID00383	1578	4253	Old	GATA6	NA
+AGID00289	1634	12601-1-AP	Set163	GCLC	0.0832149728026376
+AGID00305	1745	ab124827	Set163	GCLM	-0.119230007485989
+AGID00212	1263	3305	Old	GCN5L2	NA
+AGID00270	1579	3538	Set163	Gli1	0.33804959395442
+AGID00263	1520	ab69838	Set163	Gli3	0.117138847643121
+AGID00548	2530	3660	Set163	Glucocorticoid-Receptor	-0.73624501056183
+AGID00387	1617	12793	Set163	Glutamate-D1-2	0.971858860258392
+AGID00262	1491	ab156876	Set163	Glutaminase	0.0732599333192426
+AGID00319	1807	4275	Set163	Granzyme-B	2.10047489711097
+AGID00368	2169	ab183737	Set163	GRB7	0.182029216951773
+AGID00396	2339	3593	Set163	Grp75	-0.384895071385494
+AGID00174	1163	9315	Set163	GSK-3B	-0.0321808809212782
+AGID00502	1082	9336	Old	GSK3_pS9	0.82852
+AGID00033	284	sc-7291	Old	GSK3ALPHABETA	0.090931
+AGID00034	285	9331	Old	GSK3ALPHABETA_pS21S9	0.75927
+AGID00129	1035	3886	Old	GYS	NA
+AGID00130	1036	3891	Old	GYS_pS641	NA
+AGID01354	1342	9718	Set163	H2AX_pS139	0.160579953212566
+AGID00363	1409	MA1-2022	Set163	H2AX_pS140	0.155064931768325
+AGID00131	1038	MS-325-P1	Old	HER2	0.05048
+AGID00142	299	06-229	Old	HER2_pY1248	-0.086495
+AGID00110	911	sc-285	Old	HER3	0.40604
+AGID00080	728	4791	Old	HER3_pY1289	0.22962
+AGID00103	890	2573	Old	HEREGULIN	-0.14062
+AGID00271	1582	11988	Set163	HES1	0.0310097603097188
+AGID00397	2340	2024	Set163	Hexokinase-I	0.163119748595533
+AGID00442	1023	2867	Set163	Hexokinase-II	0.0169684369536738
+AGID00419	1402	610958	Old	HIF1ALPHA	NA
+AGID00205	1250	ab1791	Set163	Histone-H3	0.0576198197817409
+AGID00398	2341	3377	Set163	Histone-H3_pS10	-0.00281513560557709
+AGID00332	1901	ab128959	Set163	HLA-DQA1	-0.655781377421638
+AGID00333	1902	14832-1-AP	Set163	HMHA1	-1.01402050128398
+AGID00035	321	2402	Set163	HSP27	0.720954937868021
+AGID00036	323	2401	Set163	HSP27_pS82	0.128839985929112
+AGID00320	1808	12165	Set163	HSP60	-0.0949952254374437
+AGID00037	325	4872	Old	HSP70	-0.68386
+AGID00366	2158	86630	Set163	IDO	-0.0320754971164358
+AGID00197	1221	3024	Old	IGF1R_pY1135Y1136	0.28444
+AGID00038	335	3922	Old	IGFBP2	2.362
+AGID00090	793	611504	Set163	IGFBP3	0.827639672487983
+AGID00039	336	3027	Set163	IGFRb	-0.00291000055451785
+AGID00336	1949	12153	Set163	IL-6	0.0164546691002263
+AGID02221	2583	57145	Set163	IMP3	0.308789853260747
+AGID02153	2459	14543	Old	INPP4B	1.5439
+AGID00272	1586	3025	Set163	IR-b	0.440779958272541
+AGID00519	2519	4302	Set163	IRF-3	-0.0263947554696321
+AGID00520	2520	4947	Set163	IRF-3_pS396	0.562409456087476
+AGID00223	1316	sc-497	Old	IRF1	-0.14628
+AGID00092	802	06-248	Old	IRS1	-0.06122
+AGID00040	371	4502	Set163	IRS2	-0.456800468428813
+AGID00250	1394	sc-13157	Old	JAB1	0.35752
+AGID00256	1413	ab109536	Set163	Jagged1	0.0474055228283666
+AGID00177	1166	3230	Old	JAK2	-0.15614
+AGID00758	377	4671	Old	JNK_pT183Y185	0.35742
+AGID02136	2439	PA5-28262	Old	JNK2	0.38662
+AGID00307	1757	ab10484	Set163	KAP1	-0.355325513890594
+AGID00528	904	2180	Old	KU80	0.22903
+AGID00375	2237	HPA028732	Set163	LAD1	-0.504864998605041
+AGID00290	1643	IHC-00439	Set163	Lasu1	0.480084972802638
+AGID00279	1618	4108	Set163	LC3A-B	-0.165015272571447
+AGID00042	397	2752	Old	LCK	-0.72651
+AGID00119	976	3582	Old	LDHA	NA
+AGID00533	977	ab85319	Old	LDHB	NA
+AGID00529	1477	3050	Old	LKB1	-0.11254
+AGID00244	1367	2568	Set163	LRP6_pS1490	-0.167565025221893
+AGID00439	2424	2796	Set163	Lyn	-0.38893506213198
+AGID02154	2460	4370	Old	MAPK_pT202Y204	-0.39001
+AGID00198	1222	5453	Set163	Mcl-1	-0.683651053375513
+AGID00288	1633	AB3314P	Set163	MCT4	-0.611090137797655
+AGID00175	1164	3521	Set163	MDM2_pS166	-0.312625001516259
+AGID00044	417	1235-1/ab32576	Old	MEK1	0.17323
+AGID00143	1076	9154	Old	MEK1_pS217S221	-0.1832
+AGID00201	1243	9125	Set163	MEK2	0.238639523461366
+AGID00361	2118	ab51061	Set163	MelanA	0.0432249747781071
+AGID00362	2119	ab137078	Set163	Melanoma-gp100	-0.102480104803851
+AGID00337	1951	12711	Set163	MERIT40	0.791004360927059
+AGID00338	1952	12110	Set163	MERIT40_pS29	0.646340000485203
+AGID02212	2574	ab195352	Set163	METTL3	0.10306999251401
+AGID00225	1323	sc-20121	Set163	MIF	0.261609998128503
+AGID00137	1062	WH0054206M1	Old	MIG6	-0.016073
+AGID00403	2117	ab20663	Set163	MITF	-0.667825391777251
+AGID00503	1067	ab3298	Old	MITOCHONDRIA	NA
+AGID00321	1809	14739	Set163	Mitofusin-1	0.433191204857895
+AGID00322	1810	11925	Set163	Mitofusin-2	1.16461987086668
+AGID00389	2324	3515	Set163	MLH1	0.0915098532607471
+AGID00312	1780	14993	Set163	MLKL	-1.14486015595811
+AGID00402	2359	MAB3328	Set163	MMP14	-1.50112006363091
+AGID00045	435	4022	Set163	MMP2	-0.51968286269596
+AGID00122	1005	2195	Set163	Mnk1	-0.145541216472959
+AGID00331	1899	sc-377312	Set163	MR1	0.265714812165786
+AGID00273	1589	ab103319	Set163	MRAP	0.032030001732868
+AGID00530	440	4847	Old	MRE11	0.10925
+AGID00390	905	2850	Old	MSH2	-0.019921
+AGID00138	1063	22030002	Old	MSH6	0.17743
+AGID00299	1675	ab76148	Set163	MSI2	0.731675001810847
+AGID00232	1344	ab14705	Set163	MTCO1	-0.183071683099328
+AGID00046	444	2983	Old	MTOR	0.020757
+AGID00047	446	2971	Old	MTOR_pS2448	0.098641
+AGID00204	1247	H00009788-M01A	Set163	MTSS1	0.301534822285735
+AGID00401	1139	21370002	Old	MYH11	-1.0748
+AGID00291	1647	3403	Old	MYOSINIIA	NA
+AGID00173	1160	5026	Old	MYOSINIIA_pS1943	0.048067
+AGID00318	1803	4282	Set163	Myt1	0.191519742634467
+AGID00216	1274	5795-1/ab129189	Old	NAPSINA	NA
+AGID00418	452	4061	Old	NCADHERIN	-0.36732
+AGID00156	1126	3217	Old	NDRG1_pT346	0.21485
+AGID02133	2436	PA5-45913	Set163	NDUFB4	-0.125680000554518
+AGID00134	1046	22710002	Old	NF2	-0.34896
+AGID00048	457	3033	Old	NFKBP65_pS536	-0.6568
+AGID02155	2461	3608	Old	NOTCH1	0.015413
+AGID00340	1969	4147	Set163	Notch1-cleaved	0.0449047515500722
+AGID00087	767	sc-5593	Set163	Notch3	0.175219973799037
+AGID00258	1420	3187	Set163	NQO1	0.213024812165787
+AGID00162	1136	sc-31	Old	NRAS	0.1803
+AGID00257	1419	12721	Old	NRF2	NA
+AGID00297	1669	2750	Set163	Oct-4	-0.089255011913467
+AGID00420	466	1712-1/ab40803	Old	P16INK4A	-0.093627
+AGID00384	470	sc-6246	Old	P21	0.52829
+AGID00105	897	1591-1/ab32034	Old	P27	0.73078
+AGID00096	842	AF1555	Old	P27_pT157	0.19403
+AGID00099	878	ab64949	Old	P27_pT198	-0.0083184
+AGID00181	1175	9228	Set163	p38-a	0.657938885280992
+AGID00098	479	9211	Old	P38_pT180Y182	0.18932
+AGID00049	478	9212	Old	P38MAPK	0.46156
+AGID00151	1119	4695	Set163	p44-42-MAPK	0.257754986665581
+AGID00050	481	9282	Old	P53	0.40646
+AGID00490	1187	610833	Old	P62LCKLIGAND	0.48376
+AGID00545	1415	ab53039	Old	P63	NA
+AGID00052	494	9205	Old	P70S6K_pT389	-0.12269
+AGID00051	493	1494-1/ab32529	Old	P70S6K1	0.12278
+AGID00085	759	9347	Old	P90RSK	0.14709
+AGID00531	770	9344	Old	P90RSK_pT359S363	-0.1319
+AGID00182	1178	9346	Set163	p90RSK_pT573	-0.0930501249051182
+AGID00053	499	612024	Old	PAI1	-0.062462
+AGID00224	1322	HPA035895	Set163	PAICS	0.43093
+AGID00323	1811	2602	Set163	PAK1	1.46573957108057
+AGID02199	2517	PA5-69540	Set163	PAK4	0.0542548853621239
+AGID00245	1370	4336-BPC-100	Set163	PAR	0.459599539611692
+AGID00374	2209	66564	Set163	PARG	-0.161610275664616
+AGID00370	1372	sc-7150	Old	PARP1	NA
+AGID00468	501	9546	Old	PARPCLEAVED	0.42474
+AGID00274	1591	ab53715	Set163	Patched	0.0857299630552559
+AGID00513	2486	60433	Set163	PAX6	0.136409895196149
+AGID00441	1621	9857	Set163	PAX8	-0.116196384344441
+AGID00054	504	2542	Old	PAXILLIN	-0.39316
+AGID00055	509	2130	Old	PCADHERIN	0.05223
+AGID00248	511	ab29	Old	PCNA	0.082325
+AGID00413	2095	43248	Old	PDCD1	NA
+AGID00094	816	600-401-965	Old	PDCD4	0.6143
+AGID00385	1225	3169	Set163	PDGFRB	0.264404988086533
+AGID00210	1258	ab110332	Set163	PDH	0.254733841309491
+AGID00324	1817	3205	Set163	PDHA1	-0.284575677334654
+AGID00280	1622	3820	Set163	PDHK1	0.0778999913356601
+AGID00056	515	3062	Old	PDK1	0.32857
+AGID00057	516	3061	Old	PDK1_pS241	0.5116
+AGID00300	1234	sc-19090	Old	PDL1	0.12067
+AGID00124	1017	2780	Old	PEA15	-0.040596
+AGID00125	1018	44-836G	Old	PEA15_pS116	-0.82137
+AGID00440	2429	3192	Set163	PERK	-0.179250615722552
+AGID02207	2569	ab192876	Set163	PGM1	0.293469346708882
+AGID00281	1623	13428	Set163	PHGDH	0.00183937498927853
+AGID00425	2399	22789-1-AP	Set163	PHLPP	-0.0176100011783501
+AGID00226	1330	sc-376412	Set163	PI3K-p110-b	0.103609987384721
+AGID00093	808	4255	Old	PI3KP110ALPHA	0.48978
+AGID00058	523	06-195	Old	PI3KP85	0.41859
+AGID00296	1667	5675	Set163	PKA-a	-0.0390951444778604
+AGID00259	1426	9375	Set163	PKC-a-b-II_pT638_T641	0.222509994662766
+AGID00172	529	05-154	Old	PKCALPHA	-0.6336
+AGID00460	530	06-822	Old	PKCALPHA_pS657	-0.48514
+AGID00114	932	07-875	Old	PKCDELTA_pS664	0.1653
+AGID00163	1137	9371	Old	PKCPANBETAII_pS660	-0.17904
+AGID00126	1025	4053	Old	PKM2	NA
+AGID00512	2489	5690	Set163	PLC-gamma1	-0.536700835573869
+AGID02138	2441	GTX133463	Set163	PLC-gamma2_pY759	-0.109685167871576
+AGID00084	754	4513	Set163	PLK1	-0.26960006979992
+AGID00203	1246	22510002	Set163	PMS2	-0.0640100053372333
+AGID00207	1254	ab14734	Set163	Porin	0.0712600009010916
+AGID00381	549	1483-1/ab32085	Old	PR	0.026414
+AGID00081	738	AHO1031	Set163	PRAS40	0.240010001732868
+AGID00082	739	44-1100G	Old	PRAS40_pT246	-0.064557
+AGID00424	2398	OAAF05458	Set163	PRC1_pT481	-0.176680024260151
+AGID00492	1205	HPA007730	Old	PRDX1	0.11184
+AGID00190	1204	ab102739	Old	PREX1	2.7358
+AGID00061	566	9552	Old	PTEN	0.15926
+AGID00364	2154	ab76942	Set163	PTPN12	-0.335850160671511
+AGID00218	1290	4976	Set163	Puma	0.266595001949477
+AGID00200	1242	SAB2900066	Old	PYGB	NA
+AGID00535	1494	ab61013	Old	PYGL	NA
+AGID00202	1245	H00005837-M10	Old	PYGM	NA
+AGID00275	1607	3291	Set163	Pyk2_pY402	0.188794416240188
+AGID00145	1083	3539	Old	RAB11	0.18199
+AGID00169	1150	4314	Old	RAB25	0.4022
+AGID00342	1979	24555	Set163	Rad23A	0.286794915306081
+AGID00261	987	05-525	Old	RAD50	-0.24357
+AGID00360	579	NA71	Old	RAD51	-0.44556
+AGID00158	1128	2280	Old	RAPTOR	-0.16273
+AGID00059	552	9309	Old	RB	-0.053439
+AGID00060	557	9308	Old	RB_pS807S811	-0.20275
+AGID00164	1138	21390002	Old	RBM15	-0.46583
+AGID00547	735	3221	Old	RET_pY905	NA
+AGID00097	847	MAB3426	Set163	Rheb	0.243369906425132
+AGID00159	1129	2114	Old	RICTOR	-0.45982
+AGID00160	1130	3806	Old	RICTOR_pT1135	-0.21362
+AGID00282	1624	4926	Set163	RIP	-0.61407504296646
+AGID00283	1625	13526	Set163	RIP3	0.14315924793544
+AGID00416	1368	2208	Set163	RPA32	-0.379195029242146
+AGID00246	1375	A300-245A	Set163	RPA32_pS4_S8	-0.136711102311679
+AGID00341	1978	3388	Set163	RRM1	0.26730478014239
+AGID00344	1981	PA5-27856	Set163	RRM2	-0.395966660251481
+AGID00554	2425	8408	Set163	RSK1	-0.120987852740646
+AGID00353	2031	13018	Set163	S100A4	-0.337485009279508
+AGID00330	1874	2317	Old	S6	-0.54362
+AGID00062	600	2211	Old	S6_pS235S236	-0.37032
+AGID00063	601	2215	Old	S6_pS240S244	-0.36559
+AGID00157	1127	sc-58420	Old	SCD1	0.20513
+AGID00230	1339	11998	Set163	SDHA	0.185939993623046
+AGID00294	1039	ab69836	Old	SETD2	0.093392
+AGID00161	1131	32-4500	Old	SF2	0.11545
+AGID02179	2495	3534	Set163	SFRP1	0.0901439646896266
+AGID00431	2411	12103	Set163	SGK1	-0.321570741875299
+AGID00430	2409	8156	Set163	SGK3	1.64709495450355
+AGID02168	2476	bs-3413R	Old	SHC_pY317	0.3736
+AGID00376	2241	3397	Set163	SHP2	0.181089742634467
+AGID00183	1180	3751	Old	SHP2_pY542	-0.00034034
+AGID02208	2570	ab8120	Set163	SIRP-alpha	-0.259935667665254
+AGID00222	1133	sc-99002	Old	SLC1A5	NA
+AGID00255	1411	sc-136891	Set163	Slfn11	-0.278900093574867
+AGID00064	610	2954	Old	SMAC	-0.28454
+AGID00113	922	1649-1/ab33902	Old	SMAD1	-0.09949
+AGID00091	796	1735-1/ab40854	Old	SMAD3	-0.64459
+AGID02160	2467	46535	Old	SMAD4	0.024539
+AGID00065	616	3895	Old	SNAIL	0.10936
+AGID00325	1818	4266	Set163	SOD1	0.786458509734076
+AGID00380	1328	13141	Set163	SOD2	-0.380435231086593
+AGID00298	1670	2748	Set163	Sox2	0.648209788382177
+AGID00066	621	05-184	Old	SRC	-0.2296
+AGID02157	2463	6943	Old	SRC_pY416	0.26401
+AGID00068	626	2105	Old	SRC_pY527	0.18793
+AGID00185	1197	4904	Set163	Stat3	0.0235268305868409
+AGID00388	637	9131	Old	STAT3_pY705	-0.036609
+AGID00069	638	1289-1/ab32043	Old	STAT5ALPHA	-0.28647
+AGID00077	718	1972-1/ab52630	Old	STATHMIN	-0.11492
+AGID00357	2099	13647	Set163	STING	-1.22363499891696
+AGID00128	1033	sc-1240	Old	SYK	-0.46097
+AGID00070	646	05-348	Set163	Tau	0.916324972802638
+AGID00327	777	2149	Old	TAZ	-0.16785
+AGID00228	1333	7495	Set163	TFAM	0.416163670552782
+AGID00165	1140	22500002	Old	TFRC	-0.16247
+AGID00149	1107	S1711/ab137573	Old	TIGAR	-0.33753
+AGID00109	908	MS-224-P1	Old	TRANSGLUTAMINASE	-0.71067
+AGID00406	2370	612344	Set163	TRAP1	-0.0916000053372333
+AGID00559	2537	PA5-34561	Set163	TRIM24	0.149992748355879
+AGID00306	1756	ab167154	Set163	TRIM25	-0.357435716705401
+AGID00426	2400	PA5-52193	Set163	TRIP13	0.108625001394958
+AGID00155	1125	4906	Old	TSC1	-0.14984
+AGID00144	1081	2044-1/ab76013	Old	TTF1	NA
+AGID00071	670	1613-1/ab32554	Old	TUBERIN	0.29921
+AGID02194	2511	ab109403	Old	TUBERIN_pT1462	0.51793
+AGID00417	1842	ab173300	Set163	TUFM	0.00462996970946862
+AGID00238	1353	sc-81417	Set163	Twist	0.216989995633173
+AGID00436	1080	5585	Set163	Tyro3	-0.203250543912523
+AGID00295	1662	5546	Set163	U-Histone-H2B	0.683924822285735
+AGID00214	1270	HPA005651	Set163	UBAC1	-0.0513251400070615
+AGID00351	2020	sc-136145	Set163	UBQLN4	0.294889984404189
+AGID00213	1267	sc-271268	Set163	UGT1A	0.0812249977559362
+AGID00284	1626	6888	Set163	ULK1_pS757	0.126482087267545
+AGID00208	1256	MS304/ab14745	Set163	UQCRC2	-0.20075002821109
+AGID00313	1781	13115	Set163	UVRAG	-0.00478000866433941
+AGID00073	678	3112	Set163	VASP	-0.740300369308786
+AGID00184	1181	2502	Set163	VAV1	-0.38839589640374
+AGID00074	688	2479	Old	VEGFR2	1.2223
+AGID00421	2394	68547	Set163	VHL	-0.313660004366827
+AGID00231	1343	SAB4200080	Set163	Vinculin	-0.0371904212255
+AGID00317	1802	4936	Set163	Wee1	0.510813790016628
+AGID00354	2058	4910	Set163	Wee1_pS642	0.126179748595533
+AGID00285	1627	12124	Set163	WIPI1	0.180059975739849
+AGID00286	1628	8567	Set163	WIPI2	-0.364354998050524
+AGID02214	2576	ab195380	Set163	WTAP	-0.400150711723407
+AGID00133	1044	sc-32136	Old	XBP1	0.015192
+AGID00076	699	2042	Set163	XIAP	0.230009464751814
+AGID00241	1359	sc-56813	Set163	XPA	0.252245000701812
+AGID00349	1354	ab3299	Set163	XPF	-0.0307426285511393
+AGID02137	2440	PA5-29359	Old	XRCC1	0.38049
+AGID00088	780	sc-15407	Old	YAP	-0.37687
+AGID00089	782	4911	Old	YAP_pS127	-0.77185
+AGID00504	700	17250002	Old	YB1	-0.35626
+AGID00095	835	2900	Old	YB1_pS102	-0.23192
+AGID02217	2579	ab220163	Set163	YTHDF2	0.0827249707578532
+AGID02210	2572	ab220161	Set163	YTHDF3	-0.467250049421393
+AGID00326	1828	2705	Set163	ZAP-70	-0.410317164134379
+AGID00432	2244	sc-25388	Set163	ZEB1	-0.130141729262893

data/gdc_data_organized/0cf0d67c-2f7f-42a6-94f3-407d0ec46c88/TCGA-BRCA.09a78982-3fe5-4dd0-be97-03b03a6bf683.ascat2.allelic_specific.seg.txt

@@ -0,0 +1,163 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	62920	7828378	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	7828604	28591717	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	28600374	90579104	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	90582686	91029259	4	3	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	91031472	120118653	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	120119682	196706441	6	4	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	196706473	197057542	7	5	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	197057765	214188398	6	4	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	214190876	218850693	7	5	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	218850800	230102822	6	4	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	230105653	230113579	4	3	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	230116076	230378167	6	3	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	230378305	237035340	6	4	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr1	237035457	248930189	7	5	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	12784	32948398	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	32948485	33091556	5	3	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	33093224	76698773	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	76701007	76722438	8	5	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	76729368	105883331	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	105884585	112312639	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	112312708	126604482	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	126608179	126622311	2	1	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	126622793	146104517	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	146106836	146109366	0	0	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	146120238	152031276	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	152031373	152081921	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr2	152083033	242147305	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr3	20930	101177965	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr3	101178191	101194595	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr3	101195191	198169247	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	68929	18918541	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	18919001	18921261	2	1	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	18921443	34784878	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	34785333	34823103	1	1	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	34828250	113351555	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	113357121	113444572	8	5	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr4	113445348	190106768	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	15532	31318272	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	31318965	31359612	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	31359979	74276993	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	74279441	74282774	2	1	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	74282999	178823121	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	178827246	178853270	2	1	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr5	178853333	181363319	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	149661	15804803	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	15811027	15837284	6	3	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	15840202	29980974	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	29983234	30507638	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	30507940	30544386	1	1	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	30559068	41222106	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	41223610	41231364	2	1	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	41231794	60776256	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	60782469	61901790	13	11	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	61909886	67988778	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	67990740	68021435	3	3	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr6	68023800	170741917	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr7	43259	107854213	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr7	107854646	107856940	2	1	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr7	107857311	159334314	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr8	81254	145072769	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	46587	289431	8	5	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	290670	4036449	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	4037227	4045221	7	4	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	4045796	20512501	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	20513135	20538413	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	20538517	133721819	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	133721832	133753192	7	4	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	133753594	134271816	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	134271872	134280946	10	6	4
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	134281919	134298009	5	3	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr9	134309238	138200944	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr10	45792	769281	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr10	771086	29975893	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr10	29976551	30002030	1	1	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr10	30002244	33825690	3	2	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr10	33826248	133654968	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	198510	56821670	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	56822436	57870695	6	4	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	57874411	60191854	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	60192888	61187740	6	4	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	61192925	61495260	13	9	4
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	61503723	62104399	7	5	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	62105185	63988489	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	63990752	64062033	5	4	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	64064670	64580182	13	11	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	64584338	64703073	1	1	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	64703897	66413183	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	66413597	67608925	17	14	3
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	67609392	67730561	12	10	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	67730753	67734155	12	12	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	67736185	68666362	9	7	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	68666713	68772848	4	3	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	68780102	69534101	16	14	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	69536953	69606225	4	3	1
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	69608705	71097714	15	13	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	71101066	71501961	22	21	1
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+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	72653361	73303810	11	9	2
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+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	76801387	78738889	17	15	2
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+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr11	116409535	135074876	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr12	51460	133201603	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr13	18452809	102316885	3	2	1
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+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr13	102490807	114342922	3	2	1
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+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr15	45224975	45237451	1	1	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr15	45237569	76586021	4	2	2
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chr15	76598900	76609838	14	14	0
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+09a78982-3fe5-4dd0-be97-03b03a6bf683	chrX	149899987	156004181	2	2	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chrY	2782397	26653788	0	0	0
+09a78982-3fe5-4dd0-be97-03b03a6bf683	chrY	56872112	56872112	2	2	0

data/gdc_data_organized/0dc337fa-da8b-42c4-b9a7-fb76d81c161f/GOOFS_p_TCGA_b117_118_SNP_N_GenomeWideSNP_6_C09_777996.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,350 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
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+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	X	146085731	155677414	4029	0.0882

data/gdc_data_organized/0dc337fa-da8b-42c4-b9a7-fb76d81c161f/TCGA-A1-A0SN-01A-01-TS1.ae0aafc3-dbcf-4e93-b817-974263ade19a.svs

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:23d4f9893e69fea341fdd59139054906049b0768a9599049bf41c38d83dae1c7
+size 258660305

data/gdc_data_organized/0dc337fa-da8b-42c4-b9a7-fb76d81c161f/TCGA-BRCA.2e5d28ee-b288-466f-9d14-0ed674e0c6b0.ascat3.allelic_specific.seg.txt

@@ -0,0 +1,166 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr1	61735	121741181	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr1	143285278	156252225	7	6	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr1	156254231	248930189	6	5	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr2	12784	71342820	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr2	71343288	71899290	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr2	71900647	104158332	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr2	104158418	105422134	6	5	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr2	105422288	242147305	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr3	18667	198169247	4	2	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr4	12281	190106768	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	15532	86653310	6	3	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	86656847	89959342	6	6	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	89964240	129761858	6	3	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	129764151	132422622	6	6	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	132422784	173429880	6	3	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	173430083	173619552	9	5	4
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr5	173621680	181363319	6	3	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	149661	5298252	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	5298504	10118398	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	10127451	28436576	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	28441580	32989379	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	32991403	51741744	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	51742520	158895398	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	158895790	159414194	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	159414337	167989221	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	167992526	168216845	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr6	168219752	170741917	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	43259	37561943	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	37561955	37947056	5	4	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	37947917	38251113	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	38254500	38317124	15	8	7
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	38317144	50183358	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	50184346	50839590	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	50839610	70746041	4	2	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	70746065	89486339	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	89487001	91534111	5	4	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	91535692	98583166	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	98588256	104769197	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	104770826	107122773	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	107122833	110529168	5	4	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	110529184	116598586	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	116601268	117879771	6	5	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	117882633	120920816	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	120920835	120926073	7	6	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	120931073	123166277	10	9	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	123166308	123174957	4	4	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	123179517	123660198	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	123660800	124694158	9	8	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	124699307	125352178	17	16	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	125354622	125988348	11	10	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	125988404	126911412	18	17	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	126911597	127017491	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	127024098	127361054	17	17	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	127361603	127503592	7	6	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	127503827	127742211	8	7	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	127743116	127913804	1	1	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	127914054	128083780	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr7	128085379	159334314	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr8	81254	66837496	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr8	66837820	75571621	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr8	75575393	144858464	6	3	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr8	144860715	145072769	5	5	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr9	46587	42995504	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr9	60840363	68370142	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr9	68372905	138200944	4	2	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr10	26823	31477616	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr10	31479394	33811892	5	4	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr10	33812848	133769379	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	198572	57201981	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	57203880	66324239	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	66324343	67232206	32	27	5
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	67235918	68002801	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	68003122	70803425	7	5	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	70803535	78846720	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	78851504	79114418	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	79114631	80650989	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	80651264	81485861	3	3	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	81489566	81975950	0	0	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr11	81977487	135074876	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr12	51460	9229527	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr12	9229798	10676151	5	4	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr12	10676404	133201603	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr13	18452809	114342922	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr14	18225647	21907847	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr14	21908468	22079811	8	4	4
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr14	22080696	22509777	14	9	5
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr14	22509792	45109338	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr14	45109965	106877229	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr15	19811075	34165038	3	3	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr15	34165181	101928837	4	4	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr16	10777	36048855	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr16	46429870	70789730	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr16	70791080	71168894	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr16	71171291	89301090	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr16	89301622	90221127	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	150733	5998670	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	5999971	15363274	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	15367131	30189513	4	2	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	30192710	39509301	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	39510553	40321019	47	44	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	40324405	40831508	9	7	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	40831648	49278738	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	49294560	49432418	13	13	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	49436512	54166707	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	54167101	54616476	12	10	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	54617976	55116420	17	15	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	55117224	56327578	4	2	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	56329640	58290942	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	58296398	58804722	30	28	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	58804954	59519803	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	59521767	60998253	34	32	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	61002305	61303030	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	61307206	61448760	29	27	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	61450926	61527567	4	4	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	61533724	63157374	31	30	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	63158335	63672794	11	9	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	63677294	64324246	37	35	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	64326982	64332226	40	32	8
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	64333211	65323132	16	13	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	65324866	65563101	35	33	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	65565474	66723831	7	5	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	66725485	66941306	23	21	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	66941980	67988368	7	5	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	67992638	68700110	20	18	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	68700570	69494089	39	37	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	69505997	69773831	18	15	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	69778972	70138071	39	37	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	70138396	70624175	57	57	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	70627495	73472207	7	5	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr17	73474912	73769196	5	3	2
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+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr18	48133	15402409	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr18	20949392	80257174	4	2	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr19	90910	58586487	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	80664	37102518	5	3	2
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	37103095	38516710	6	3	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	38518958	46085951	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	46086279	46184665	38	29	9
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	46187123	49955136	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	49957579	52243295	15	14	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	52243776	52322708	7	6	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	52324232	52924379	40	39	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	52924740	52995010	21	21	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	52995324	53510548	14	13	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	53513125	53561351	29	26	3
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	53562700	53562700	6	6	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	53564225	54698688	34	33	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	54700477	56206760	1	1	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	56209922	56732019	9	8	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	56732240	57293678	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	57297833	60840114	1	1	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	60843124	60928562	12	11	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	60928861	60995668	1	1	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	60995684	61206711	27	26	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr20	61209353	64324800	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr21	10336543	46677045	2	2	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chr22	15294545	50796027	2	1	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	251810	2924557	4	3	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	2932760	45988987	5	4	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	45989489	57069834	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	57069986	67952946	3	3	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	67953025	74445413	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	74446784	78457019	3	3	0
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	78457401	106927628	3	2	1
+2e5d28ee-b288-466f-9d14-0ed674e0c6b0	chrX	106927683	156004181	4	2	2

data/gdc_data_organized/0dc337fa-da8b-42c4-b9a7-fb76d81c161f/bf04b853-9f33-4c8d-94b3-4a5533426a38.mirbase21.mirnas.quantification.txt

@@ -0,0 +1,1882 @@
+miRNA_ID	read_count	reads_per_million_miRNA_mapped	cross-mapped
+hsa-let-7a-1	17089	4910.793055	N
+hsa-let-7a-2	17026	4892.689013	N
+hsa-let-7a-3	17158	4930.621290	N
+hsa-let-7b	41716	11987.749024	N
+hsa-let-7c	4718	1355.791540	N
+hsa-let-7d	1034	297.136171	N
+hsa-let-7e	917	263.514379	N
+hsa-let-7f-1	4861	1396.884840	N
+hsa-let-7f-2	4832	1388.551234	N
+hsa-let-7g	1172	336.792642	N
+hsa-let-7i	1208	347.137809	N
+hsa-mir-1-1	1	0.287366	N
+hsa-mir-1-2	0	0.000000	N
+hsa-mir-100	4534	1302.916245	N
+hsa-mir-101-1	8079	2321.627777	N
+hsa-mir-101-2	8190	2353.525374	N
+hsa-mir-103a-1	21183	6087.268376	Y
+hsa-mir-103a-2	20876	5999.047095	Y
+hsa-mir-103b-1	0	0.000000	N
+hsa-mir-103b-2	0	0.000000	N
+hsa-mir-105-1	0	0.000000	N
+hsa-mir-105-2	1	0.287366	N
+hsa-mir-106a	61	17.529310	Y
+hsa-mir-106b	1272	365.529216	N
+hsa-mir-107	126	36.208083	Y
+hsa-mir-10a	490391	140921.570419	N
+hsa-mir-10b	137119	39403.302292	N
+hsa-mir-1178	0	0.000000	N
+hsa-mir-1179	0	0.000000	N
+hsa-mir-1180	11	3.161023	N
+hsa-mir-1181	0	0.000000	N
+hsa-mir-1182	0	0.000000	N
+hsa-mir-1183	0	0.000000	N
+hsa-mir-1184-1	0	0.000000	N
+hsa-mir-1184-2	0	0.000000	N
+hsa-mir-1184-3	0	0.000000	N
+hsa-mir-1185-1	1	0.287366	N
+hsa-mir-1185-2	0	0.000000	N
+hsa-mir-1193	0	0.000000	N
+hsa-mir-1197	1	0.287366	N
+hsa-mir-1199	0	0.000000	N
+hsa-mir-1200	0	0.000000	N
+hsa-mir-1202	0	0.000000	N
+hsa-mir-1203	0	0.000000	N
+hsa-mir-1204	0	0.000000	N
+hsa-mir-1205	0	0.000000	N
+hsa-mir-1206	0	0.000000	N
+hsa-mir-1207	0	0.000000	N
+hsa-mir-1208	0	0.000000	N
+hsa-mir-122	0	0.000000	N
+hsa-mir-1224	1	0.287366	N
+hsa-mir-1225	0	0.000000	N
+hsa-mir-1226	1	0.287366	N
+hsa-mir-1227	0	0.000000	N
+hsa-mir-1228	0	0.000000	N
+hsa-mir-1229	2	0.574731	N
+hsa-mir-1231	0	0.000000	N
+hsa-mir-1233-1	0	0.000000	N
+hsa-mir-1233-2	0	0.000000	N
+hsa-mir-1234	0	0.000000	N
+hsa-mir-1236	0	0.000000	N
+hsa-mir-1237	0	0.000000	N
+hsa-mir-1238	0	0.000000	N
+hsa-mir-124-1	0	0.000000	N
+hsa-mir-124-2	0	0.000000	N
+hsa-mir-124-3	0	0.000000	N
+hsa-mir-1243	0	0.000000	N
+hsa-mir-1244-1	0	0.000000	N
+hsa-mir-1244-2	0	0.000000	N
+hsa-mir-1244-3	0	0.000000	N
+hsa-mir-1244-4	0	0.000000	N
+hsa-mir-1245a	10	2.873657	N
+hsa-mir-1245b	0	0.000000	N
+hsa-mir-1246	0	0.000000	N
+hsa-mir-1247	36	10.345166	N
+hsa-mir-1248	0	0.000000	N
+hsa-mir-1249	7	2.011560	N
+hsa-mir-1250	0	0.000000	N
+hsa-mir-1251	0	0.000000	N
+hsa-mir-1252	1	0.287366	N
+hsa-mir-1253	0	0.000000	N
+hsa-mir-1254-1	1	0.287366	N
+hsa-mir-1254-2	0	0.000000	N
+hsa-mir-1255a	0	0.000000	N
+hsa-mir-1255b-1	0	0.000000	N
+hsa-mir-1255b-2	0	0.000000	N
+hsa-mir-1256	0	0.000000	N
+hsa-mir-1257	0	0.000000	N
+hsa-mir-1258	0	0.000000	N
+hsa-mir-125a	1259	361.793461	N
+hsa-mir-125b-1	663	190.523483	N
+hsa-mir-125b-2	692	198.857089	N
+hsa-mir-126	7392	2124.207517	N
+hsa-mir-1260a	0	0.000000	N
+hsa-mir-1260b	0	0.000000	N
+hsa-mir-1261	0	0.000000	N
+hsa-mir-1262	0	0.000000	N
+hsa-mir-1263	0	0.000000	N
+hsa-mir-1264	0	0.000000	N
+hsa-mir-1265	0	0.000000	N
+hsa-mir-1266	30	8.620972	N
+hsa-mir-1267	0	0.000000	N
+hsa-mir-1268a	0	0.000000	N
+hsa-mir-1268b	0	0.000000	N
+hsa-mir-1269a	67	19.253504	N
+hsa-mir-1269b	0	0.000000	N
+hsa-mir-127	2660	764.392857	N
+hsa-mir-1270	0	0.000000	N
+hsa-mir-1271	15	4.310486	N
+hsa-mir-1272	0	0.000000	N
+hsa-mir-1273a	0	0.000000	N
+hsa-mir-1273c	0	0.000000	N
+hsa-mir-1273d	0	0.000000	N
+hsa-mir-1273e	0	0.000000	N
+hsa-mir-1273f	0	0.000000	N
+hsa-mir-1273g	0	0.000000	N
+hsa-mir-1273h	0	0.000000	N
+hsa-mir-1275	0	0.000000	N
+hsa-mir-1276	1	0.287366	N
+hsa-mir-1277	2	0.574731	N
+hsa-mir-1278	0	0.000000	N
+hsa-mir-1279	0	0.000000	N
+hsa-mir-128-1	154	44.254323	N
+hsa-mir-128-2	89	25.575550	N
+hsa-mir-1281	0	0.000000	N
+hsa-mir-1282	0	0.000000	N
+hsa-mir-1283-1	0	0.000000	N
+hsa-mir-1283-2	0	0.000000	N
+hsa-mir-1284	0	0.000000	N
+hsa-mir-1285-1	0	0.000000	N
+hsa-mir-1285-2	0	0.000000	N
+hsa-mir-1286	0	0.000000	N
+hsa-mir-1287	52	14.943018	N
+hsa-mir-1288	3	0.862097	N
+hsa-mir-1289-1	0	0.000000	N
+hsa-mir-1289-2	0	0.000000	N
+hsa-mir-129-1	2	0.574731	N
+hsa-mir-129-2	1	0.287366	N
+hsa-mir-1290	0	0.000000	N
+hsa-mir-1291	0	0.000000	N
+hsa-mir-1292	2	0.574731	N
+hsa-mir-1293	0	0.000000	N
+hsa-mir-1294	0	0.000000	N
+hsa-mir-1295a	1	0.287366	N
+hsa-mir-1295b	1	0.287366	N
+hsa-mir-1296	10	2.873657	N
+hsa-mir-1297	0	0.000000	N
+hsa-mir-1298	0	0.000000	N
+hsa-mir-1299	0	0.000000	N
+hsa-mir-1301	20	5.747315	N
+hsa-mir-1302-1	0	0.000000	N
+hsa-mir-1302-10	0	0.000000	N
+hsa-mir-1302-11	0	0.000000	N
+hsa-mir-1302-2	0	0.000000	N
+hsa-mir-1302-3	0	0.000000	N
+hsa-mir-1302-4	0	0.000000	N
+hsa-mir-1302-5	0	0.000000	N
+hsa-mir-1302-6	0	0.000000	N
+hsa-mir-1302-7	0	0.000000	N
+hsa-mir-1302-8	0	0.000000	N
+hsa-mir-1302-9	0	0.000000	N
+hsa-mir-1303	1	0.287366	N
+hsa-mir-1304	1	0.287366	N
+hsa-mir-1305	0	0.000000	N
+hsa-mir-1306	17	4.885218	N
+hsa-mir-1307	2401	689.965131	N
+hsa-mir-130a	77	22.127162	N
+hsa-mir-130b	45	12.931458	N
+hsa-mir-132	183	52.587930	N
+hsa-mir-1321	0	0.000000	N
+hsa-mir-1322	0	0.000000	N
+hsa-mir-1323	0	0.000000	N
+hsa-mir-1324	0	0.000000	N
+hsa-mir-133a-1	1	0.287366	N
+hsa-mir-133a-2	2	0.574731	N
+hsa-mir-133b	0	0.000000	N
+hsa-mir-134	1123	322.711721	N
+hsa-mir-1343	2	0.574731	N
+hsa-mir-135a-1	1	0.287366	N
+hsa-mir-135a-2	0	0.000000	N
+hsa-mir-135b	8	2.298926	N
+hsa-mir-136	132	37.932277	N
+hsa-mir-137	0	0.000000	N
+hsa-mir-138-1	0	0.000000	N
+hsa-mir-138-2	0	0.000000	N
+hsa-mir-139	181	52.013198	N
+hsa-mir-140	961	276.158472	N
+hsa-mir-141	15371	4417.098721	N
+hsa-mir-142	18425	5294.713677	N
+hsa-mir-143	66957	19241.147555	N
+hsa-mir-144	79	22.701893	N
+hsa-mir-145	2187	628.468864	N
+hsa-mir-1468	5	1.436829	N
+hsa-mir-1469	0	0.000000	N
+hsa-mir-146a	319	91.669670	N
+hsa-mir-146b	1276	366.678679	N
+hsa-mir-1470	0	0.000000	N
+hsa-mir-1471	0	0.000000	N
+hsa-mir-147a	0	0.000000	N
+hsa-mir-147b	1	0.287366	N
+hsa-mir-148a	87008	25003.117918	N
+hsa-mir-148b	603	173.281539	N
+hsa-mir-149	198	56.898416	N
+hsa-mir-150	4660	1339.124328	N
+hsa-mir-151a	3049	876.178128	N
+hsa-mir-151b	4	1.149463	N
+hsa-mir-152	769	220.984251	N
+hsa-mir-153-1	2	0.574731	N
+hsa-mir-153-2	140	40.231203	N
+hsa-mir-1537	2	0.574731	N
+hsa-mir-1538	2	0.574731	N
+hsa-mir-1539	0	0.000000	N
+hsa-mir-154	12	3.448389	N
+hsa-mir-155	906	260.353356	N
+hsa-mir-1587	0	0.000000	N
+hsa-mir-15a	291	83.623429	N
+hsa-mir-15b	320	91.957035	N
+hsa-mir-16-1	805	231.329417	N
+hsa-mir-16-2	828	237.938829	N
+hsa-mir-17	744	213.800107	Y
+hsa-mir-181a-1	1153	331.332693	N
+hsa-mir-181a-2	2193	630.193058	N
+hsa-mir-181b-1	161	46.265883	N
+hsa-mir-181b-2	133	38.219643	N
+hsa-mir-181c	144	41.380666	N
+hsa-mir-181d	20	5.747315	N
+hsa-mir-182	59054	16970.096147	N
+hsa-mir-1825	0	0.000000	N
+hsa-mir-1827	0	0.000000	N
+hsa-mir-183	27534	7912.328162	N
+hsa-mir-184	141	40.518569	N
+hsa-mir-185	83	23.851356	N
+hsa-mir-186	435	125.004095	N
+hsa-mir-187	76	21.839796	N
+hsa-mir-188	3	0.862097	N
+hsa-mir-18a	10	2.873657	Y
+hsa-mir-18b	5	1.436829	Y
+hsa-mir-1908	1	0.287366	N
+hsa-mir-1909	0	0.000000	N
+hsa-mir-190a	7	2.011560	N
+hsa-mir-190b	8	2.298926	N
+hsa-mir-191	2460	706.919709	N
+hsa-mir-1910	0	0.000000	N
+hsa-mir-1911	1	0.287366	N
+hsa-mir-1912	0	0.000000	N
+hsa-mir-1913	0	0.000000	N
+hsa-mir-1914	0	0.000000	N
+hsa-mir-1915	0	0.000000	N
+hsa-mir-192	2028	582.777712	Y
+hsa-mir-193a	639	183.626705	N
+hsa-mir-193b	300	86.209721	N
+hsa-mir-194-1	262	75.289823	N
+hsa-mir-194-2	299	85.922355	N
+hsa-mir-195	31	8.908338	N
+hsa-mir-196a-1	171	49.139541	N
+hsa-mir-196a-2	219	62.933096	N
+hsa-mir-196b	1907	548.006458	N
+hsa-mir-197	463	133.050336	N
+hsa-mir-1972-1	0	0.000000	N
+hsa-mir-1972-2	0	0.000000	N
+hsa-mir-1973	0	0.000000	N
+hsa-mir-1976	15	4.310486	N
+hsa-mir-198	0	0.000000	N
+hsa-mir-199a-1	7106	2042.020917	Y
+hsa-mir-199a-2	12042	3460.458187	Y
+hsa-mir-199b	15824	4547.275399	Y
+hsa-mir-19a	38	10.919898	N
+hsa-mir-19b-1	95	27.299745	N
+hsa-mir-19b-2	81	23.276625	N
+hsa-mir-200a	4793	1377.343970	N
+hsa-mir-200b	1174	337.367374	N
+hsa-mir-200c	29264	8409.470885	N
+hsa-mir-202	1	0.287366	N
+hsa-mir-203a	36814	10579.082188	N
+hsa-mir-203b	425	122.130438	N
+hsa-mir-204	1	0.287366	N
+hsa-mir-205	592	170.120515	N
+hsa-mir-2052	0	0.000000	N
+hsa-mir-2053	0	0.000000	N
+hsa-mir-2054	0	0.000000	N
+hsa-mir-206	0	0.000000	N
+hsa-mir-208a	0	0.000000	N
+hsa-mir-208b	0	0.000000	N
+hsa-mir-20a	258	74.140360	N
+hsa-mir-20b	293	84.198161	N
+hsa-mir-21	1768331	508157.738501	N
+hsa-mir-210	972	279.319495	N
+hsa-mir-211	1	0.287366	N
+hsa-mir-2110	3	0.862097	N
+hsa-mir-2113	0	0.000000	N
+hsa-mir-2114	1	0.287366	N
+hsa-mir-2115	0	0.000000	N
+hsa-mir-2116	2	0.574731	N
+hsa-mir-2117	0	0.000000	N
+hsa-mir-212	4	1.149463	N
+hsa-mir-214	107	30.748134	N
+hsa-mir-215	17	4.885218	Y
+hsa-mir-216a	0	0.000000	N
+hsa-mir-216b	0	0.000000	N
+hsa-mir-217	17	4.885218	N
+hsa-mir-218-1	35	10.057801	N
+hsa-mir-218-2	29	8.333606	N
+hsa-mir-219a-1	6	1.724194	N
+hsa-mir-219a-2	0	0.000000	N
+hsa-mir-219b	0	0.000000	N
+hsa-mir-22	224291	64453.548191	N
+hsa-mir-221	122	35.058620	N
+hsa-mir-222	64	18.391407	N
+hsa-mir-223	102	29.311305	N
+hsa-mir-224	2	0.574731	N
+hsa-mir-2276	0	0.000000	N
+hsa-mir-2277	9	2.586292	N
+hsa-mir-2278	0	0.000000	N
+hsa-mir-2355	123	35.345985	N
+hsa-mir-2392	0	0.000000	N
+hsa-mir-23a	5520	1586.258860	Y
+hsa-mir-23b	1866	536.224463	Y
+hsa-mir-23c	0	0.000000	N
+hsa-mir-24-1	827	237.651463	N
+hsa-mir-24-2	957	275.009009	N
+hsa-mir-2467	0	0.000000	N
+hsa-mir-25	21552	6193.306332	N
+hsa-mir-2681	0	0.000000	N
+hsa-mir-2682	0	0.000000	N
+hsa-mir-26a-1	1452	417.255048	N
+hsa-mir-26a-2	1465	420.990803	N
+hsa-mir-26b	1034	297.136171	N
+hsa-mir-27a	1336	383.920623	Y
+hsa-mir-27b	1040	298.860365	Y
+hsa-mir-28	4678	1344.296911	N
+hsa-mir-2861	0	0.000000	N
+hsa-mir-2909	0	0.000000	N
+hsa-mir-296	2	0.574731	N
+hsa-mir-297	0	0.000000	N
+hsa-mir-298	0	0.000000	N
+hsa-mir-299	0	0.000000	N
+hsa-mir-29a	5065	1455.507451	N
+hsa-mir-29b-1	331	95.118058	N
+hsa-mir-29b-2	419	120.406243	Y
+hsa-mir-29c	1702	489.096482	Y
+hsa-mir-300	0	0.000000	N
+hsa-mir-301a	42	12.069361	N
+hsa-mir-301b	3	0.862097	N
+hsa-mir-302a	0	0.000000	N
+hsa-mir-302b	0	0.000000	N
+hsa-mir-302c	0	0.000000	N
+hsa-mir-302d	0	0.000000	N
+hsa-mir-302e	0	0.000000	N
+hsa-mir-302f	0	0.000000	N
+hsa-mir-3064	1	0.287366	N
+hsa-mir-3065	59	16.954578	N
+hsa-mir-3074	113	32.472328	N
+hsa-mir-30a	26554	7630.709742	Y
+hsa-mir-30b	836	240.237755	Y
+hsa-mir-30c-1	426	122.417803	Y
+hsa-mir-30c-2	405	116.383123	Y
+hsa-mir-30d	16415	4717.108549	N
+hsa-mir-30e	25419	7304.549632	Y
+hsa-mir-31	12	3.448389	N
+hsa-mir-3115	2	0.574731	N
+hsa-mir-3116-1	0	0.000000	N
+hsa-mir-3116-2	0	0.000000	N
+hsa-mir-3117	0	0.000000	N
+hsa-mir-3118-1	0	0.000000	N
+hsa-mir-3118-2	0	0.000000	N
+hsa-mir-3118-3	0	0.000000	N
+hsa-mir-3118-4	0	0.000000	N
+hsa-mir-3119-1	0	0.000000	N
+hsa-mir-3119-2	0	0.000000	N
+hsa-mir-3120	0	0.000000	N
+hsa-mir-3121	0	0.000000	N
+hsa-mir-3122	0	0.000000	N
+hsa-mir-3123	0	0.000000	N
+hsa-mir-3124	2	0.574731	N
+hsa-mir-3125	0	0.000000	N
+hsa-mir-3126	0	0.000000	N
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+hsa-mir-320b-2	1	0.287366	Y
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+hsa-mir-331	83	23.851356	N
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+hsa-mir-337	107	30.748134	N
+hsa-mir-338	317	91.094938	N
+hsa-mir-339	108	31.035499	N
+hsa-mir-33a	18	5.172583	N
+hsa-mir-33b	18	5.172583	N
+hsa-mir-340	58	16.667213	N
+hsa-mir-342	1197	343.976785	N
+hsa-mir-345	31	8.908338	N
+hsa-mir-346	2	0.574731	N
+hsa-mir-34a	294	84.485526	N
+hsa-mir-34b	2	0.574731	N
+hsa-mir-34c	14	4.023120	N
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+hsa-mir-3611	0	0.000000	N
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+hsa-mir-3651	2	0.574731	N
+hsa-mir-3652	0	0.000000	N
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+hsa-mir-3655	1	0.287366	N
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+hsa-mir-3658	0	0.000000	N
+hsa-mir-3659	1	0.287366	N
+hsa-mir-365a	216	62.070999	Y
+hsa-mir-365b	211	60.634170	Y
+hsa-mir-3660	0	0.000000	N
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+hsa-mir-376a-2	2	0.574731	N
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+hsa-mir-377	4	1.149463	N
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+hsa-mir-4441	0	0.000000	N
+hsa-mir-4442	0	0.000000	N
+hsa-mir-4443	0	0.000000	N
+hsa-mir-4444-1	2	0.574731	N
+hsa-mir-4444-2	2	0.574731	N
+hsa-mir-4445	0	0.000000	N
+hsa-mir-4446	1	0.287366	N
+hsa-mir-4447	0	0.000000	N
+hsa-mir-4448	0	0.000000	N
+hsa-mir-4449	1	0.287366	N
+hsa-mir-4450	0	0.000000	N
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+hsa-mir-4455	0	0.000000	N
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+hsa-mir-4664	3	0.862097	N
+hsa-mir-4665	2	0.574731	N
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+hsa-mir-4666b	0	0.000000	N
+hsa-mir-4667	0	0.000000	N
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+hsa-mir-6504	2	0.574731	N
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+hsa-mir-7-1	149	42.817495	N
+hsa-mir-7-2	1	0.287366	N
+hsa-mir-7-3	2	0.574731	N
+hsa-mir-708	340	97.704350	N
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+hsa-mir-766	20	5.747315	N
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+hsa-mir-9-1	495	142.246039	N
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+hsa-mir-92a-1	6110	1755.804644	N
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+hsa-mir-92b	295	84.772892	N
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+hsa-mir-95	4	1.149463	N
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+hsa-mir-96	39	11.207264	N
+hsa-mir-98	108	31.035499	N
+hsa-mir-99a	1687	484.785996	N
+hsa-mir-99b	61718	17735.638466	N

data/gdc_data_organized/0dc337fa-da8b-42c4-b9a7-fb76d81c161f/nationwidechildrens.org_ssf.TCGA-A1-A0SN.xml

@@ -0,0 +1,93 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<ssf:tcga_bcr xsi:schemaLocation="http://tcga.nci/bcr/xml/ssf/2.7 https://raw.githubusercontent.com/nchbcr/xsd/2.7/tcga.nci/bcr/xml/ssf/2.7/TCGA_BCR.SSF.xsd" schemaVersion="2.7" xmlns:ssf="http://tcga.nci/bcr/xml/ssf/2.7" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:admin="http://tcga.nci/bcr/xml/administration/2.7" xmlns:shared="http://tcga.nci/bcr/xml/shared/2.7" xmlns:ssf_disease="http://tcga.nci/bcr/xml/ssf_disease/2.7">
+    <admin:admin>
+        <admin:bcr xsd_ver="1.17">Nationwide Children's Hospital</admin:bcr>
+        <admin:file_uuid xsd_ver="2.6">F23C084C-3C88-40B7-8C2C-19776C4FC354</admin:file_uuid>
+        <admin:batch_number xsd_ver="1.17">117.79.0</admin:batch_number>
+        <admin:project_code xsd_ver="2.7">TCGA</admin:project_code>
+        <admin:disease_code xsd_ver="2.6">BRCA</admin:disease_code>
+        <admin:day_of_dcc_upload xsd_ver="1.17">22</admin:day_of_dcc_upload>
+        <admin:month_of_dcc_upload xsd_ver="1.17">12</admin:month_of_dcc_upload>
+        <admin:year_of_dcc_upload xsd_ver="1.17">2016</admin:year_of_dcc_upload>
+        <admin:patient_withdrawal>
+            <admin:withdrawn>false</admin:withdrawn>
+        </admin:patient_withdrawal>
+        <admin:program xsi:nil="true" xsd_ver="2.7"/>
+        <admin:dbgap_registration_code xsi:nil="true" xsd_ver="2.7"/>
+    </admin:admin>
+    <ssf:patient>
+        <admin:additional_studies/>
+        <shared:bcr_patient_barcode preferred_name="" display_order="9999" cde="2003301" cde_ver="" xsd_ver="1.8" owner="TSS" procurement_status="Completed" restricted="false">TCGA-A1-A0SN</shared:bcr_patient_barcode>
+        <shared:bcr_patient_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" owner="TSS" procurement_status="Completed" restricted="false">0dc337fa-da8b-42c4-b9a7-fb76d81c161f</shared:bcr_patient_uuid>
+        <shared:tissue_source_site cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A1</shared:tissue_source_site>
+        <shared:patient_id cde="" cde_ver="" xsd_ver="2.4" owner="TSS" procurement_status="Completed" restricted="false">A0SN</shared:patient_id>
+        <shared:hiv_status preferred_name="hiv_status" display_order="9999" cde="2180464" cde_ver="1.000" xsd_ver="2.5" tier="" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
+        <ssf:tumor_samples>
+            <ssf:tumor_sample>
+                <ssf:bcr_sample_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false">62d2a36e-feb1-4084-8111-7ea38a4e3049</ssf:bcr_sample_uuid>
+                <shared:days_to_sample_procurement precision="day" xsd_ver="2.3" tier="" cde="" owner="TSS" procurement_status="Completed" preferred_name="" display_order="9999" cde_ver="">53</shared:days_to_sample_procurement>
+                <shared:method_of_sample_procurement preferred_name="tumor_sample_procurement_method" display_order="11" cde="3103514" cde_ver="1.000" xsd_ver="2.3" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252582">Other Method, specify</shared:method_of_sample_procurement>
+                <shared:other_method_of_sample_procurement preferred_name="cancer_procurement_method_other" display_order="12" cde="2006730" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252583">partial mastectomy</shared:other_method_of_sample_procurement>
+                <ssf:vessel_used preferred_name="tumor_sample_vessel_used" display_order="16" cde="3081940" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252584">Cassette</ssf:vessel_used>
+                <ssf:other_vessel_used preferred_name="tumor_sample_ship_vessel_other" display_order="17" cde="3288137" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="252585"/>
+                <shared:maximum_tumor_dimension preferred_name="tumor_resected_max_dimension" display_order="9999" cde="64215" cde_ver="3.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
+                <ssf:tumor_weight preferred_name="tumor_sample_weight" display_order="23" cde="3081946" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252586">500</ssf:tumor_weight>
+                <ssf:sample_prescreened preferred_name="tumor_sample_prescreened_at_tss" display_order="19" cde="3081942" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252589">YES</ssf:sample_prescreened>
+                <shared:tumor_nuclei_percent preferred_name="tumor_nuclei_percent" display_order="24" cde="2841225" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252587">80</shared:tumor_nuclei_percent>
+                <shared:tumor_necrosis_percent preferred_name="necrosis_percent" display_order="25" cde="2841237" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252588">0</shared:tumor_necrosis_percent>
+                <ssf:days_to_pathology_review precision="day" xsd_ver="2.5" tier="2" cde="3288497" owner="TSS" procurement_status="Completed" preferred_name="tss_pathology_review_days_to" display_order="63" cde_ver="1.000">1088</ssf:days_to_pathology_review>
+                <ssf:path_confirm_tumor_nuclei_metrics preferred_name="tumor_nuclei_requirements_indicator" display_order="64" cde="3288520" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252659">YES</ssf:path_confirm_tumor_nuclei_metrics>
+                <ssf:path_confirm_tumor_necrosis_metrics preferred_name="necrosis_requirements_indicator" display_order="65" cde="3288524" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252660">YES</ssf:path_confirm_tumor_necrosis_metrics>
+                <ssf:path_confirm_report_attached preferred_name="tss_pathology_submitted" display_order="66" cde="3288292" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252662">YES</ssf:path_confirm_report_attached>
+                <ssf:path_confirm_diagnosis_matching preferred_name="histologic_dx_consistent" display_order="68" cde="3288300" cde_ver="1.000" xsd_ver="1.8" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252661">YES</ssf:path_confirm_diagnosis_matching>
+                <ssf:reason_path_confirm_diagnosis_not_matching preferred_name="histologic_dx_inconsistent_reason" display_order="69" cde="3288315" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <ssf:top_slide_submitted preferred_name="tumor_sample_top_slide_submitted" display_order="999" cde="3081944" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252590">YES</ssf:top_slide_submitted>
+                <ssf:digital_image_submitted preferred_name="tumor_sample_image_submitted" display_order="999" cde="3081948" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252592">NO</ssf:digital_image_submitted>
+                <ssf:ffpe_tumor_slide_submitted preferred_name="ffpe_slide_submitted_indicator" display_order="9999" cde="3295811" cde_ver="1.000" xsd_ver="2.5" tier="" owner="TSS" procurement_status="Completed" restricted="false">NO</ssf:ffpe_tumor_slide_submitted>
+                <ssf:submitted_for_lce preferred_name="tumor_sample_bcr_macrodissection" display_order="9999" cde="3288488" cde_ver="1.000" xsd_ver="1.8" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                <shared:other_dx preferred_name="history_other_malignancy" display_order="14" cde="3382736" cde_ver="2.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252664">No</shared:other_dx>
+                <shared:history_of_neoadjuvant_treatment preferred_name="history_neoadjuvant_treatment" display_order="15" cde="3382737" cde_ver="1.000" xsd_ver="2.4" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252664">No</shared:history_of_neoadjuvant_treatment>
+                <shared:consent_or_death_status preferred_name="patient_consent_status" display_order="72" cde="3288361" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252665">Consented</shared:consent_or_death_status>
+                <shared:days_to_consent precision="day" xsd_ver="2.5" tier="1" cde="3288498" owner="TSS" procurement_status="Completed" preferred_name="patient_consent_days_to" display_order="76" cde_ver="1.000">53</shared:days_to_consent>
+                <shared:country preferred_name="tumor_sample_procurement_country" display_order="13" cde="3203072" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="740484">United States</shared:country>
+                <ssf_disease:disease_details/>
+                <ssf:tumor_histologies>
+                    <ssf:tumor_histology>
+                        <shared:histological_type preferred_name="histologic_diagnosis" display_order="3" cde="3081934" cde_ver="3.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252575">Infiltrating Ductal Carcinoma</shared:histological_type>
+                        <shared:histological_type_other preferred_name="histologic_diagnosis_other" display_order="31" cde="3124492" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
+                        <shared:histological_percentage preferred_name="histologic_diagnosis_percent" display_order="9999" cde="3729998" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                        <shared:tumor_morphology_percentage preferred_name="" display_order="9999" cde="3729984" cde_ver="1.000" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false" xsi:nil="true"/>
+                    </ssf:tumor_histology>
+                </ssf:tumor_histologies>
+                <ssf:tumor_locations>
+                    <ssf:tumor_focality preferred_name="tumor_focality" display_order="9999" cde="3174022" cde_ver="1.000" xsd_ver="2.5" tier="2" owner="TSS" procurement_status="Not Applicable" restricted="false"/>
+                    <ssf:laterality preferred_name="" display_order="9999" cde="4742852" cde_ver="" xsd_ver="2.6" tier="" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252578">Left</ssf:laterality>
+                    <ssf:tumor_location>
+                        <ssf:site_of_disease preferred_name="" display_order="9999" cde="4742851" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="252578">Breast</ssf:site_of_disease>
+                        <ssf:site_of_disease_text preferred_name="" display_order="9999" cde="4742871" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false"/>
+                        <ssf:site_of_disease_description preferred_name="" display_order="9999" cde="4742918" cde_ver="" xsd_ver="2.6" tier="2" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="252578"/>
+                    </ssf:tumor_location>
+                </ssf:tumor_locations>
+            </ssf:tumor_sample>
+        </ssf:tumor_samples>
+        <ssf:normal_controls>
+            <ssf:normal_control>
+                <ssf:bcr_sample_uuid preferred_name="" display_order="9999" cde="" cde_ver="" xsd_ver="2.3" tier="2" owner="TSS" procurement_status="Completed" restricted="false">903f65bc-a740-4571-bfe0-5aa0895d714a</ssf:bcr_sample_uuid>
+                <ssf:method_of_normal_sample_procurement preferred_name="normal_control_method" display_order="50" cde="3288147" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Completed" restricted="false" source_system_identifier="683055">Blood Draw</ssf:method_of_normal_sample_procurement>
+                <ssf:other_method_of_normal_sample_procurement preferred_name="normal_control_method_other" display_order="51" cde="3288151" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="683056"/>
+                <ssf:days_to_normal_sample_procurement precision="year" xsd_ver="2.3" tier="1" cde="3288496" owner="TSS" procurement_status="Completed" preferred_name="normal_control_procurement_days_to" display_order="55" cde_ver="1.000">-551</ssf:days_to_normal_sample_procurement>
+                <ssf:normal_sample_site_proximity_to_tumor preferred_name="normal_control_proximity_to_tumor" display_order="59" cde="3088708" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="683049"/>
+                <ssf:ncedna_dna_conc preferred_name="normal_control_DNA_concentration" display_order="48" cde="3288187" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="683047"/>
+                <ssf:ncedna_dna_qm preferred_name="normal_control_DNA_quant_method" display_order="47" cde="3288186" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="683046"/>
+                <ssf:ncedna_dna_qty preferred_name="normal_control_DNA_quantity" display_order="46" cde="3288185" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="683045"/>
+                <ssf:ncedna_dna_vol preferred_name="normal_control_DNA_volume" display_order="49" cde="3288188" cde_ver="1.000" xsd_ver="2.5" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="683048"/>
+                <ssf:normal_control_locations>
+                    <ssf:normal_control_location>
+                        <ssf:normal_tissue_anatomic_site preferred_name="" display_order="57" cde="4132152" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Available" restricted="false" source_system_identifier="683050"/>
+                        <ssf:other_anatomic_site_normal_tissue preferred_name="normal_control_site_other" display_order="58" cde="3288189" cde_ver="1.000" xsd_ver="2.5" tier="1" owner="TSS" procurement_status="Not Applicable" restricted="false" source_system_identifier="683051"/>
+                    </ssf:normal_control_location>
+                </ssf:normal_control_locations>
+            </ssf:normal_control>
+        </ssf:normal_controls>
+    </ssf:patient>
+</ssf:tcga_bcr>

data/gdc_data_organized/0dd8dbc1-c48b-4e7c-b401-57101f724967/TAKEN_p_TCGAb_379_400_FFPE_NSP_GenomeWideSNP_6_A10_1513252.grch38.seg.v2.txt

@@ -0,0 +1,522 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	15	32565281	43646185	7254	-0.0028
+0a50d096-f517-485c-9b61-5ab097ce7d8d	15	43646608	43692744	2	-1.5291
+0a50d096-f517-485c-9b61-5ab097ce7d8d	15	43698230	101928837	38361	0.0002
+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	10777	48873389	21626	0.0038
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	48876352	55764310	5318	0.01
+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	55764850	55764867	2	2.9334
+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	55770436	55775554	7	0.7035
+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	55776109	58909081	1896	-0.0014
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	58921751	74364131	9176	-0.0069
+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	74371293	74422703	6	-1.01
+0a50d096-f517-485c-9b61-5ab097ce7d8d	16	74431498	78338949	3208	-0.0003
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	X	140720572	140722503	4	-1.0685
+0a50d096-f517-485c-9b61-5ab097ce7d8d	X	140726391	141475366	435	0.0082
+0a50d096-f517-485c-9b61-5ab097ce7d8d	X	141475512	141601940	10	-0.6708
+0a50d096-f517-485c-9b61-5ab097ce7d8d	X	141604634	147761735	4346	-0.0013
+0a50d096-f517-485c-9b61-5ab097ce7d8d	X	147762129	147767488	33	-0.7765
+0a50d096-f517-485c-9b61-5ab097ce7d8d	X	147767641	155952689	4460	0.0118
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	2782397	3421944	208	-3.1945
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	3432225	6195001	553	-2.6985
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	6195105	9330531	1466	-3.3635
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	9332936	9334605	3	-7.3423
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	9334951	13478462	1035	-3.2571
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	13479657	13491197	7	-5.7855
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	13492145	20752415	2632	-3.3114
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	20752492	20756691	2	-7.4771
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	20757006	25169825	554	-3.3909
+0a50d096-f517-485c-9b61-5ab097ce7d8d	Y	25472063	56872112	179	-2.6873

data/gdc_data_organized/0dd8dbc1-c48b-4e7c-b401-57101f724967/TCGA-BRCA.0a50d096-f517-485c-9b61-5ab097ce7d8d.ascat2.allelic_specific.seg.txt

@@ -0,0 +1,116 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	62920	24873061	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	24877458	24956502	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	24956865	101771701	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	101774940	101798353	4	2	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	101806926	105476583	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	105476614	105479753	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	105481433	121705338	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	143541857	152168544	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	152168598	152174829	7	5	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	152175092	196873141	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	196874041	197376873	4	3	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	197378041	217084626	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	217084958	217102516	6	3	3
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	217102705	241643677	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	241644077	241661233	7	5	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr1	241663518	248930189	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr2	12784	53224440	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr2	53225192	53244177	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr2	53246288	242147305	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	20930	3925783	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	3928744	3956189	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	3956282	41659227	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	41659904	81407501	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	81409352	146538692	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	146539520	146543340	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr3	146543717	198169247	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	68929	3324422	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	3327484	10618853	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	10620290	78318482	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	78319947	78339379	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	78339861	129492393	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	129492539	129518316	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	129521234	153824644	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	153824771	153834034	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr4	153837515	190106768	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	15532	9982854	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	9982952	9997519	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	9997673	153740488	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	153740704	153754442	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	153755521	178827320	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	178828653	178841756	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	178841925	179084406	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	179084845	179089071	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr5	179089482	181363319	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr6	149661	30449372	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr6	30449682	30509499	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr6	30515216	103286299	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr6	103286770	103317795	5	5	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr6	103317836	170741917	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	43259	18776341	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	18776474	18791965	4	2	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	18792135	35357957	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	35358012	35367559	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	35369836	69385522	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	69385803	69559941	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	69560024	70512035	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	70513300	72920136	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	72928921	108023764	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	108024342	108072585	4	2	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr7	108073607	159334314	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr8	81254	69152771	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr8	69153124	69166138	5	3	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr8	69166802	145072769	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr9	46587	138200944	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr10	45792	85694037	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr10	85696201	95105336	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr10	95105427	95109349	7	7	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr10	95109949	100509247	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr10	100509328	133654968	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr11	198510	5766175	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr11	5766850	5787909	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr11	5788108	135074876	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr12	51460	5871924	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr12	5872187	5955924	1	1	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr12	5956571	133201603	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr13	18452809	57192766	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr13	57193049	57204246	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr13	57215580	110465321	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr13	110465637	110469500	0	0	0
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr13	110469526	114342922	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr14	18239283	40011688	2	1	1
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr14	40736361	50051938	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr14	50052108	50082909	3	2	1
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr16	10777	55093116	2	1	1
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+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr17	36200725	83091923	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr18	48133	78656349	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr18	78657571	78666188	5	3	2
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr18	78666578	80257174	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr19	90910	58586487	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr20	80664	44018169	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr20	44019003	44031267	4	3	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr20	44031646	64324800	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr21	12973348	46677045	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chr22	16392123	50796027	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chrX	251810	10154746	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chrX	10159054	10194184	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chrX	10196495	21951950	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chrX	21954036	22021631	3	2	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chrX	22021818	156004181	2	1	1
+0a50d096-f517-485c-9b61-5ab097ce7d8d	chrY	2782397	56872112	0	0	0

data/gdc_data_organized/1111fb30-46ce-4722-98da-ec9ba2323d90/5b84ccee-4b8e-4710-97d9-28e269a4e60b.wxs.aliquot_ensemble_masked.maf.gz

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:e68d4977f743d348da0cb408840a9109bea654fe1ccca36ad33b5cfd015fc589
+size 32590

data/gdc_data_organized/1111fb30-46ce-4722-98da-ec9ba2323d90/HAULS_p_TCGAb47_SNP_2N_GenomeWideSNP_6_F12_628570.nocnv_grch38.seg.v2.txt

@@ -0,0 +1,903 @@
+GDC_Aliquot	Chromosome	Start	End	Num_Probes	Segment_Mean
+e866c189-b2f5-4948-afcf-adfc6ff323eb	1	3301765	14090672	5883	-0.0864
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	18	40779827	47566752	4026	-0.0707
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	18	57709137	64751332	4565	-0.058
+e866c189-b2f5-4948-afcf-adfc6ff323eb	18	64751348	67850588	1587	-0.4817
+e866c189-b2f5-4948-afcf-adfc6ff323eb	18	67855728	67930333	56	-1.0333
+e866c189-b2f5-4948-afcf-adfc6ff323eb	18	67936468	75138633	2812	-0.4628
+e866c189-b2f5-4948-afcf-adfc6ff323eb	18	75153610	79349796	2853	-0.0831
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	283868	13415237	4773	-0.1272
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	13421690	13503193	65	0.6114
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	13511519	21528153	3139	-0.1251
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	21534501	21538872	2	-1.482
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	23834822	23841010	7	0.7321
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	23844313	23872082	35	-0.0279
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	27749470	36207756	5702	0.6389
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	36208132	37641202	678	0.7799
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	37644145	40646985	1423	0.5826
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	40653288	40787216	77	0.1544
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	40787231	43544465	845	-0.1211
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	43548804	43548956	2	-1.4748
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	43550906	45026115	890	-0.1247
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	45027773	53901012	3335	0.1696
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	53901209	53901222	2	-1.3479
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	53901924	57103806	1512	0.1493
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	57104108	57105415	2	-1.3309
+e866c189-b2f5-4948-afcf-adfc6ff323eb	19	57109644	58370362	634	0.175
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	472817	7961474	4669	-0.1079
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	7964192	7996933	22	-0.605
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	7997097	8077215	44	-0.3451
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	8077351	8104743	21	-0.6825
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	8605879	8935587	329	-0.0723
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	8936311	9321096	227	-0.4796
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	9322460	12430216	2372	-0.0923
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	12433219	23879116	8098	-0.0617
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	23882026	31842101	1468	-0.0933
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	31843968	38057165	3111	0.1929
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	38057295	39682727	1088	1.1194
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	39683574	40356618	466	1.5213
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	40357346	41091185	535	0.9875
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	41092190	41726601	283	0.833
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	41733178	42049180	261	0.8313
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	42049790	43199269	879	0.6855
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	43199518	43598372	253	0.4824
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	43602055	43648004	21	0.818
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	43648076	44779770	727	0.4355
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	47514280	49292084	1227	0.6673
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	49294394	49300443	8	1.178
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	49394665	49936974	209	1.0265
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	50202311	50208920	7	1.3834
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	55499842	56357446	661	1.0002
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	56358048	56444783	72	1.7422
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	56449349	56516601	43	1.3927
+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	56521396	56615053	50	1.311
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	20	57232491	57440299	117	1.3813
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	X	32838659	39996621	2825	-0.0403
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	X	57357297	66369950	1519	-0.0334
+e866c189-b2f5-4948-afcf-adfc6ff323eb	X	66370364	83562183	6686	0.0346
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	X	97423530	97502322	35	-0.268
+e866c189-b2f5-4948-afcf-adfc6ff323eb	X	97502834	152654676	26492	0.0401
+e866c189-b2f5-4948-afcf-adfc6ff323eb	X	152655458	155677414	403	-0.0125

data/gdc_data_organized/1111fb30-46ce-4722-98da-ec9ba2323d90/TCGA-BRCA.e866c189-b2f5-4948-afcf-adfc6ff323eb.ascat2.allelic_specific.seg.txt

@@ -0,0 +1,516 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	62920	14644316	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	14654070	14800240	2	2	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	14801247	117105285	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	117108377	119261074	2	1	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	119261664	121705338	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	143541857	152778761	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	152782154	152806100	1	1	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	152806341	231894119	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	231894556	236345136	8	7	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	236346041	240023015	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	240027635	241142842	8	7	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	241143352	248930189	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	12784	29896356	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	29896907	30130265	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	30150500	64437306	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	64437331	64463493	1	1	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	64465879	70064237	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	70071020	72668872	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	72670970	74122858	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	74126313	80337721	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	80341396	81939810	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	81941048	83829143	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	83829199	88319975	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	88320080	97702572	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	97703886	98917266	8	6	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	98917766	100084352	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	100102121	127072723	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	127075108	127101070	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	127103254	129157320	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	129157541	129203117	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	129204239	201945041	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	201946879	202032355	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	202037187	219270486	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	219273269	219329195	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	219329636	242147305	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	20930	4181326	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	4181585	4561908	11	10	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	4563688	6130956	8	7	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	6130991	6973984	9	8	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	6975215	7483333	14	13	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	7485685	9288880	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	9293976	9402969	2	2	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	9403684	12707631	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	12710250	13195564	14	13	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	13197234	13390274	11	10	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	13390388	14572873	7	6	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	14573249	53407349	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	53408880	83025534	2	1	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	83035862	85197958	7	6	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	85198244	85533530	11	10	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	85535063	86617990	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	86619003	86745351	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	86745910	87215332	6	4	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	87215346	93801172	4	3	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	93804513	95465646	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	95472874	103288998	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	103291072	119840915	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	119841267	120313652	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	120314390	161100512	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	161102613	161400279	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	161405738	198169247	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr4	68929	18459555	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr4	18462349	18463819	6	4	2
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	12161880	30496733	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	30506568	30549770	9	8	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	30549851	31001870	12	12	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	31002884	31544160	12	11	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	31551285	33026657	16	16	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	33034222	33445761	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	33445923	33974217	6	5	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	33977149	64740446	3	2	1
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr18	75162349	80257174	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr19	90910	13421690	3	3	0
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr19	40573434	40787216	5	3	2
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr19	45040529	58586487	4	3	1
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrX	251810	4055702	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrX	4057015	27085523	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrX	27087793	27161093	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrX	27161467	75340946	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrX	75341063	75913137	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrX	75913268	156004181	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrY	2782397	26653788	0	0	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chrY	56872112	56872112	2	2	0

data/gdc_data_organized/1111fb30-46ce-4722-98da-ec9ba2323d90/TCGA-BRCA.e866c189-b2f5-4948-afcf-adfc6ff323eb.ascat3.allelic_specific.seg.txt

@@ -0,0 +1,374 @@
+GDC_Aliquot	Chromosome	Start	End	Copy_Number	Major_Copy_Number	Minor_Copy_Number
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	61735	14642994	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	14644316	14809032	2	2	0
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	14810012	117105285	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	117108377	119241480	2	1	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	119242218	121741181	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	143285278	231918161	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	231918332	236345136	8	7	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	236346041	240020376	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	240020486	241151307	8	7	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr1	241152383	248930189	5	4	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	12784	70064237	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	70071020	72634777	4	2	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	72634823	74201991	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	74202065	80347076	5	3	2
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	80347352	82122387	4	2	2
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr2	83785283	88319975	3	2	1
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	13162043	13458469	11	10	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	13459754	14526159	7	6	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	14526178	14572737	6	5	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	14572873	53363454	3	2	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	53365085	83022564	2	1	1
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	85222790	85533530	11	10	1
+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr3	85535063	86628060	3	2	1
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+e866c189-b2f5-4948-afcf-adfc6ff323eb	chr4	82119022	133889418	3	3	0
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